AutismKB 2.0

Annotation Detail for SYNE1


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Basic Information Top
Gene Symbol:SYNE1 ( 8B,ARCA1,C6orf98,CPG2,DKFZp781J13156,EDMD4,FLJ30878,FLJ41140,KIAA0796,KIAA1262,KIAA1756,MYNE1,SCAR8,dJ45H2.2 )
Gene Full Name: spectrin repeat containing, nuclear envelope 1
Band: 6q25.2
Quick LinksEntrez ID:23345; OMIM: 608441; Uniprot ID:SYNE1_HUMAN; ENSEMBL ID: ENSG00000131018; HGNC ID: 17089
Relate to Another Database: SFARIGene; denovo-db
Post Translation Modification Top
Location(AA) Modification
1327Phosphoserine.
2091Phosphotyrosine.
2377Phosphoserine.
3891Phosphothreonine.
8223Phosphoserine.
8270Phosphoserine.
8274Phosphothreonine.
8277Phosphoserine.
8280Phosphoserine.
8345Phosphoserine.
Location(AA) Modifications Resource
1327Phosphoserine.Swiss-Prot 53.0
8223Phosphoserine.Swiss-Prot 53.0
8223PhosphoserinePhospho.ELM 6.0
8270Phosphoserine.Swiss-Prot 53.0
8270PhosphoserinePhospho.ELM 6.0
8274Phosphothreonine.Swiss-Prot 53.0
8274PhosphothreoninePhospho.ELM 6.0
8277PhosphoserinePhospho.ELM 6.0
8277Phosphoserine.Swiss-Prot 53.0
8280PhosphoserinePhospho.ELM 6.0
8280Phosphoserine.Swiss-Prot 53.0
8345Phosphoserine.Swiss-Prot 53.0
8345PhosphoserinePhospho.ELM 6.0
Location(AA) Modification Resource
110N-linkedHMM predict
147Phosphoserine(IKK)HMM predict
149Phosphoserine(CK2)HMM predict
154Phosphoserine(CK1)HMM predict
154Phosphoserine(ATM)HMM predict
157O-linkedHMM predict
157Phosphoserine(IKK)HMM predict
160O-linkedHMM predict
163Phosphothreonine(MAPK)HMM predict
163Phosphothreonine(CDK)HMM predict
165Phosphoserine(CDC2)HMM predict
165Phosphoserine(MAPK)HMM predict
165Phosphoserine(CDK)HMM predict
165Phosphoserine(ATM)HMM predict
165Phosphoserine(IKK)HMM predict
173Phosphothreonine(PKA)HMM predict
173Phosphothreonine(PKC)HMM predict
287N-linkedHMM predict
350Phosphoserine(CDK)HMM predict
496Phosphoserine(CK1)HMM predict
535Phosphoserine(PKG)HMM predict
535PhosphoserineHMM predict
556Phosphotyrosine(Syk)HMM predict
588N-linkedHMM predict
810Phosphoserine(ATM)HMM predict
964Phosphothreonine(PKA)HMM predict
1097Phosphothreonine(MAPK)HMM predict
1134Phosphoserine(CAMK2)HMM predict
1143N-linkedHMM predict
1180Phosphothreonine(PKC)HMM predict
1244Phosphoserine(PKG)HMM predict
1282Phosphothreonine(PKC)HMM predict
1368Phosphoserine(IKK)HMM predict
1376Phosphoserine(CK1)HMM predict
1376Phosphoserine(CK2)HMM predict
1377Phosphoserine(CK1)HMM predict
1391Phosphoserine(PKG)HMM predict
1495Phosphoserine(CK1)HMM predict
1552Phosphoserine(ATM)HMM predict
1569Phosphoserine(CK2)HMM predict
1589Phosphotyrosine(Syk)HMM predict
1610O-linkedHMM predict
1636Phosphotyrosine(Syk)HMM predict
1679Phosphoserine(PKG)HMM predict
1679Phosphoserine(IKK)HMM predict
1790Phosphothreonine(PKC)HMM predict
1790Phosphothreonine(CK2)HMM predict
1815Phosphoserine(CK1)HMM predict
1832Phosphoserine(PKA)HMM predict
1947Phosphoserine(IKK)HMM predict
2104N-linkedHMM predict
2144N-linkedHMM predict
2205Phosphothreonine(PKC)HMM predict
2223N-linkedHMM predict
2226N-linkedHMM predict
2229N-linkedHMM predict
2256Phosphoserine(CK1)HMM predict
2333N-linkedHMM predict
2351Phosphoserine(ATM)HMM predict
2355N-linkedHMM predict
2357Phosphoserine(CK1)HMM predict
2372Phosphoserine(PKA)HMM predict
2515Phosphoserine(CK1)HMM predict
2665Phosphoserine(CK1)HMM predict
2719Phosphoserine(CK1)HMM predict
2727Phosphothreonine(PKC)HMM predict
2781Phosphoserine(CK2)HMM predict
2801Phosphotyrosine(INSR)HMM predict
2801Phosphotyrosine(Syk)HMM predict
2876Phosphothreonine(PKC)HMM predict
2902Phosphoserine(PKG)HMM predict
2910N-linkedHMM predict
2942Phosphoserine(IKK)HMM predict
2991Phosphothreonine(CK2)HMM predict
3034Phosphoserine(CK1)HMM predict
3096N-linkedHMM predict
3112Phosphoserine(CK2)HMM predict
3204Phosphotyrosine(INSR)HMM predict
3255Phosphoserine(PKG)HMM predict
3255Phosphoserine(CAMK2)HMM predict
3261Phosphotyrosine(Syk)HMM predict
3266N-linkedHMM predict
3314Phosphoserine(IKK)HMM predict
3350N-linkedHMM predict
3352Phosphoserine(CDC2)HMM predict
3382Phosphoserine(IKK)HMM predict
3413N-linkedHMM predict
3485Phosphothreonine(PKC)HMM predict
3518Phosphotyrosine(INSR)HMM predict
3587Phosphoserine(CK1)HMM predict
3622Phosphoserine(CDC2)HMM predict
3622Phosphoserine(CDK)HMM predict
3629Phosphoserine(PKA)HMM predict
3629Phosphoserine(PKG)HMM predict
3706Phosphoserine(CK1)HMM predict
3712Phosphoserine(IKK)HMM predict
3713Phosphoserine(CK1)HMM predict
3715Phosphoserine(CK1)HMM predict
3715Phosphoserine(CK2)HMM predict
3872Phosphoserine(CK1)HMM predict
3927Phosphotyrosine(Syk)HMM predict
3927SulfotyrosineHMM predict
3955Phosphoserine(CK1)HMM predict
4018O-linkedHMM predict
4028Phosphotyrosine(EGFR)HMM predict
4062O-linkedHMM predict
4062Phosphoserine(CDC2)HMM predict
4062Phosphoserine(CDK)HMM predict
4062Phosphoserine(ATM)HMM predict
4127N-linkedHMM predict
4161Phosphoserine(PKA)HMM predict
4161Phosphoserine(PKG)HMM predict
4161Phosphoserine(CAMK2)HMM predict
4161Phosphoserine(CK1)HMM predict
4173Phosphoserine(ATM)HMM predict
4266Phosphoserine(CK2)HMM predict
4374Phosphoserine(ATM)HMM predict
4447Phosphotyrosine(Jak)HMM predict
4453Phosphoserine(CK1)HMM predict
4502Phosphoserine(PKG)HMM predict
4506Phosphotyrosine(INSR)HMM predict
4543Phosphotyrosine(Syk)HMM predict
4593N-linkedHMM predict
4615Phosphotyrosine(Jak)HMM predict
4664Phosphotyrosine(Jak)HMM predict
4664Phosphotyrosine(Syk)HMM predict
4698Phosphoserine(PKA)HMM predict
4711Phosphoserine(CK1)HMM predict
4771Phosphoserine(PKG)HMM predict
4780Phosphotyrosine(EGFR)HMM predict
4936Phosphoserine(CK1)HMM predict
4992Phosphotyrosine(Jak)HMM predict
5054Phosphoserine(IKK)HMM predict
5106Phosphotyrosine(Jak)HMM predict
5118N-linkedHMM predict
5135Phosphoserine(CK2)HMM predict
5135PhosphoserineHMM predict
5167Phosphoserine(ATM)HMM predict
5180Phosphothreonine(PKC)HMM predict
5186Phosphothreonine(PKC)HMM predict
5224Phosphothreonine(PKA)HMM predict
5266Phosphoserine(IKK)HMM predict
5275Phosphothreonine(PKA)HMM predict
5286O-linkedHMM predict
5286Phosphothreonine(MAPK)HMM predict
5286Phosphothreonine(CDK)HMM predict
5348N-linkedHMM predict
5423Phosphoserine(IKK)HMM predict
5426Phosphothreonine(CK2)HMM predict
5427Phosphoserine(CK1)HMM predict
5427Phosphoserine(IKK)HMM predict
5520Phosphoserine(PKG)HMM predict
5520Phosphoserine(CK1)HMM predict
5657Phosphoserine(MAPK)HMM predict
5664Phosphoserine(PKG)HMM predict
5743Phosphotyrosine(Syk)HMM predict
5743SulfotyrosineHMM predict
5838O-linkedHMM predict
5844O-linkedHMM predict
5874O-linkedHMM predict
5881O-linkedHMM predict
5881Phosphoserine(CDC2)HMM predict
5881Phosphoserine(IKK)HMM predict
5883PhosphoserineHMM predict
5909Phosphothreonine(PKC)HMM predict
5925Phosphotyrosine(Syk)HMM predict
5989Phosphoserine(ATM)HMM predict
6023Phosphoserine(CK2)HMM predict
6056Phosphothreonine(PKC)HMM predict
6062Phosphoserine(PKG)HMM predict
6105Phosphothreonine(PKA)HMM predict
6111Phosphoserine(CDC2)HMM predict
6111PhosphoserineHMM predict
6144Phosphoserine(CK1)HMM predict
6158Phosphothreonine(CK2)HMM predict
6200Phosphoserine(CK1)HMM predict
6207O-linkedHMM predict
6230Phosphoserine(CK1)HMM predict
6289Phosphoserine(CK2)HMM predict
6349Phosphoserine(IKK)HMM predict
6367Phosphoserine(CK1)HMM predict
6367Phosphoserine(ATM)HMM predict
6384Phosphotyrosine(Syk)HMM predict
6567Phosphotyrosine(Syk)HMM predict
6584N-linkedHMM predict
6763Phosphoserine(ATM)HMM predict
6767Phosphoserine(CK1)HMM predict
6802Phosphoserine(CAMK2)HMM predict
6858Phosphoserine(IKK)HMM predict
6861Phosphoserine(CK1)HMM predict
6979Phosphoserine(ATM)HMM predict
7192Phosphoserine(PKA)HMM predict
7208O-linkedHMM predict
7253Phosphoserine(IKK)HMM predict
7295Phosphothreonine(PKC)HMM predict
7328Phosphoserine(CK1)HMM predict
7330Phosphoserine(ATM)HMM predict
7387Phosphoserine(CK1)HMM predict
7442Phosphoserine(ATM)HMM predict
7445Phosphothreonine(PKC)HMM predict
7691Phosphothreonine(PKC)HMM predict
7697Phosphoserine(PKA)HMM predict
7741Phosphotyrosine(INSR)HMM predict
7743Phosphoserine(CK2)HMM predict
7804Phosphoserine(ATM)HMM predict
7853Phosphoserine(PKG)HMM predict
7893N-linkedHMM predict
7919Phosphoserine(CK1)HMM predict
8008Phosphotyrosine(EGFR)HMM predict
8009Phosphoserine(CK2)HMM predict
8070N-linkedHMM predict
8074Phosphoserine(IKK)HMM predict
8097Phosphothreonine(PKA)HMM predict
8098Phosphoserine(PKA)HMM predict
8223Phosphoserine(CK2)HMM predict
8247Phosphoserine(IKK)HMM predict
8250Phosphoserine(CDC2)HMM predict
8250Phosphoserine(MAPK)HMM predict
8250Phosphoserine(CDK)HMM predict
8255Phosphoserine(IKK)HMM predict
8258Phosphoserine(CK1)HMM predict
8274Phosphothreonine(MAPK)HMM predict
8277Phosphoserine(CK2)HMM predict
8289Phosphotyrosine(Jak)HMM predict
8305Phosphoserine(CK2)HMM predict
8329Phosphoserine(IKK)HMM predict
8400Phosphoserine(CK1)HMM predict
8447Phosphoserine(CK2)HMM predict
8665Phosphoserine(ATM)HMM predict
8681Phosphoserine(ATM)HMM predict
8683O-linkedHMM predict
8685Phosphoserine(CDC2)HMM predict
8685Phosphoserine(CDK)HMM predict
8685Phosphoserine(IKK)HMM predict
8687O-linkedHMM predict
8687Phosphothreonine(PKC)HMM predict
8688O-linkedHMM predict
8688O-linkedHMM predict
8692Phosphothreonine(CDC2)HMM predict
8692Phosphothreonine(MAPK)HMM predict
8692Phosphothreonine(CDK)HMM predict
8698Phosphothreonine(CDC2)HMM predict
8706Phosphoserine(ATM)HMM predict
8711O-linkedHMM predict
8711Phosphoserine(ATM)HMM predict
8714Phosphoserine(CDC2)HMM predict
8727Phosphoserine(IKK)HMM predict
8729O-linkedHMM predict
8729Phosphoserine(CK1)HMM predict
8772Phosphotyrosine(INSR)HMM predict
8773Phosphoserine(IKK)HMM predict
Validated transcription factor binding site by ChIP-Chip and ChIP-Seq
  • RefSeq ID: NM_015293
  • Location:chr6 152484607-152681171
  • strand:-
No data
No data
Transcrip Factors Experimental Cell Database TF Binding Start TF Binding End TF Binding Length The Distance to Gene
CBP T0-glioblastomaGSE21026 152549388 152549593 205 0
CBP T0-glioblastomaGSE21026 152616484 152616692 208 0
CTCF CD4GSE12889 152569403 152569592 189 0
CTCF CD4GSE12889 152631225 152631372 147 0
CTCF CD4GSE12889 152664775 152665130 355 0
CTCF CD4SISSRdata 152569403 152569592 189 0
CTCF CD4SISSRdata 152631225 152631372 147 0
CTCF CD4SISSRdata 152664775 152665130 355 0
CTCF G2GSE9613 152569095 152569656 561 0
CTCF G2GSE9613 152586515 152586831 316 0
CTCF G2GSE9613 152624129 152624387 258 0
CTCF G2GSE9613 152640862 152641160 298 0
CTCF G2GSE9613 152660058 152660270 212 0
CTCF G2GSE9613 152664738 152665149 411 0
FOXA1 MCF7GSE15244 152570741 152571478 737 0
FoxA1 MCF7MACSdata 152570919 152571222 303 0
RARA MCF7GSE15244 152570885 152571445 560 0
Rb SenescentGSE19898 152664800 152665277 477 0
Sox2 hESGSE18292 152631065 152631434 369 0
TFAP2C MCF7GSE21234 152581626 152582079 453 0
TFAP2C MCF7GSE21234 152596003 152596339 336 0
hScc1 BcellGSE12603 152630955 152631176 221 0
hScc1 BcellGSE12603 152664625 152665287 662 0
hScc1 CdLSGSE12603 152630807 152631717 910 0
hScc1 CdLSGSE12603 152664738 152665287 549 0
p130 QuiescentGSE19898 152664487 152664900 413 0
p130 QuiescentGSE19898 152664941 152665321 380 0
p130 SenescentGSE19898 152664421 152665317 896 0
p130 shRbSenescentGSE19898 152664806 152665107 301 0
Validated miRNA targets Top
Micro RNA Name Stem Loop Name The chromosome that miRNA located Publication
hsa-let-7a hsa-let-7a-1 9 18258830
hsa-let-7a hsa-let-7a-2 11 18258830
hsa-let-7a hsa-let-7a-3 22 18258830
hsa-let-7b hsa-let-7b 22 18258830
hsa-let-7b hsa-let-7b 22 18668040
hsa-let-7b* hsa-let-7b 22 18258830
hsa-let-7b* hsa-let-7b 22 18668040
hsa-let-7c hsa-let-7c 21 18258830
hsa-let-7c* hsa-let-7c 21 18258830
hsa-let-7d hsa-let-7d 9 18258830
hsa-let-7d* hsa-let-7d 9 18258830
hsa-let-7e hsa-let-7e 19 18258830
hsa-let-7e* hsa-let-7e 19 18258830
hsa-let-7f hsa-let-7f-1 9 18258830
hsa-let-7f hsa-let-7f-2 X 18258830
hsa-let-7i hsa-let-7i 12 18258830
hsa-let-7i* hsa-let-7i 12 18258830
hsa-miR-1 hsa-mir-1-2 18 18668040
hsa-miR-1 hsa-mir-1-1 20 18668040
hsa-miR-100 hsa-mir-100 11 18258830
hsa-miR-100* hsa-mir-100 11 18258830
hsa-miR-124 hsa-mir-124-1 8 18258830
hsa-miR-124 hsa-mir-124-2 8 18258830
hsa-miR-124 hsa-mir-124-3 20 18258830
hsa-miR-125a-5p hsa-mir-125a 19 18258830
hsa-miR-130a hsa-mir-130a 11 18258830
hsa-miR-130a* hsa-mir-130a 11 18258830
hsa-miR-132 hsa-mir-132 17 18258830
hsa-miR-132* hsa-mir-132 17 18258830
hsa-miR-138 hsa-mir-138-2 16 18258830
hsa-miR-138 hsa-mir-138-1 3 18258830
hsa-miR-139-5p hsa-mir-139 11 18258830
hsa-miR-150 hsa-mir-150 19 18258830
hsa-miR-150* hsa-mir-150 19 18258830
hsa-miR-155 hsa-mir-155 21 18668040
hsa-miR-155* hsa-mir-155 21 18668040
hsa-miR-16 hsa-mir-16-1 13 18668040
hsa-miR-16 hsa-mir-16-2 3 18668040
hsa-miR-181b hsa-mir-181b-1 1 18258830
hsa-miR-181b hsa-mir-181b-2 9 18258830
hsa-miR-185 hsa-mir-185 22 18258830
hsa-miR-185* hsa-mir-185 22 18258830
hsa-miR-204 hsa-mir-204 9 18258830
hsa-miR-21 hsa-mir-21 17 18258830
hsa-miR-21* hsa-mir-21 17 18258830
hsa-miR-214 hsa-mir-214 1 18258830
hsa-miR-214* hsa-mir-214 1 18258830
hsa-miR-215 hsa-mir-215 1 18258830
hsa-miR-218 hsa-mir-218-1 4 18258830
hsa-miR-218 hsa-mir-218-2 5 18258830
hsa-miR-223 hsa-mir-223 X 18258830
hsa-miR-223* hsa-mir-223 X 18258830
hsa-miR-23a hsa-mir-23a 19 18258830
hsa-miR-23a* hsa-mir-23a 19 18258830
hsa-miR-23b hsa-mir-23b 9 18258830
hsa-miR-23b* hsa-mir-23b 9 18258830
hsa-miR-24 hsa-mir-24-1 9 18258830
hsa-miR-24 hsa-mir-24-2 19 18258830
hsa-miR-25 hsa-mir-25 7 18258830
hsa-miR-25* hsa-mir-25 7 18258830
hsa-miR-26b hsa-mir-26b 2 18258830
hsa-miR-26b* hsa-mir-26b 2 18258830
hsa-miR-27a hsa-mir-27a 19 18258830
hsa-miR-27a* hsa-mir-27a 19 18258830
hsa-miR-298 hsa-mir-298 20 18258830
hsa-miR-29a hsa-mir-29a 7 18258830
hsa-miR-29a* hsa-mir-29a 7 18258830
hsa-miR-29b hsa-mir-29b-1 7 18258830
hsa-miR-29b hsa-mir-29b-2 1 18258830
hsa-miR-29c hsa-mir-29c 1 18258830
hsa-miR-29c* hsa-mir-29c 1 18258830
hsa-miR-301a hsa-mir-301a 17 18258830
hsa-miR-30a hsa-mir-30a 6 18258830
hsa-miR-30a hsa-mir-30a 6 18668040
hsa-miR-30a* hsa-mir-30a 6 18258830
hsa-miR-30a* hsa-mir-30a 6 18668040
hsa-miR-30b hsa-mir-30b 8 18668040
hsa-miR-30b* hsa-mir-30b 8 18668040
hsa-miR-30c hsa-mir-30c-2 6 18258830
hsa-miR-30c hsa-mir-30c-1 1 18258830
hsa-miR-30c hsa-mir-30c-2 6 18668040
hsa-miR-30c hsa-mir-30c-1 1 18668040
hsa-miR-30c-1* hsa-mir-30c-1 1 18668040
hsa-miR-30c-2* hsa-mir-30c-2 6 18668040
hsa-miR-30d hsa-mir-30d 8 18668040
hsa-miR-30d* hsa-mir-30d 8 18668040
hsa-miR-30e hsa-mir-30e 1 18258830
hsa-miR-30e hsa-mir-30e 1 18668040
hsa-miR-30e* hsa-mir-30e 1 18258830
hsa-miR-30e* hsa-mir-30e 1 18668040
hsa-miR-324-5p hsa-mir-324 17 18258830
hsa-miR-328 hsa-mir-328 16 18258830
hsa-miR-331-3p hsa-mir-331 12 18258830
hsa-miR-331-5p hsa-mir-331 12 18258830
hsa-miR-338-3p hsa-mir-338 17 18258830
hsa-miR-338-5p hsa-mir-338 17 18258830
hsa-miR-342-5p hsa-mir-342 14 18258830
hsa-miR-34a hsa-mir-34a 1 18258830
hsa-miR-34a* hsa-mir-34a 1 18258830
hsa-miR-382 hsa-mir-382 14 18258830
hsa-miR-383 hsa-mir-383 8 18258830
hsa-miR-409-3p hsa-mir-409 14 18258830
hsa-miR-485-3p hsa-mir-485 14 18258830
hsa-miR-485-5p hsa-mir-485 14 18258830
hsa-miR-494 hsa-mir-494 14 18258830
hsa-miR-497 hsa-mir-497 17 18258830
hsa-miR-497* hsa-mir-497 17 18258830
hsa-miR-543 hsa-mir-543 14 18258830
hsa-miR-664 hsa-mir-664 0 18258830
hsa-miR-664* hsa-mir-664 0 18258830
hsa-miR-9 hsa-mir-9-1 1 18258830
hsa-miR-9 hsa-mir-9-2 5 18258830
hsa-miR-9 hsa-mir-9-3 15 18258830
hsa-miR-92a hsa-mir-92a-1 13 18258830
hsa-miR-92a hsa-mir-92a-2 X 18258830
hsa-miR-98 hsa-mir-98 X 18258830
hsa-miR-99a hsa-mir-99a 21 18258830
hsa-miR-99a* hsa-mir-99a 21 18258830
hsa-miR-99b hsa-mir-99b 19 18258830
hsa-miR-99b* hsa-mir-99b 19 18258830
ID in Tarbase Data Type Support Type miRNA Gene Direct Support Publication
1202 Unknown pSILAC miR-1 SYNE1 down 75-50% 18668040
Ensembl Protein Type Differentially expressed in Pathology or Event Mis Regulation Gene Expression Tumour Involvement
ENSG00000131018 n_a n_a n_a "lymphocyte, muscle cell, epithelium" "benign tumour, malignant tumour, carcinoma, leukaemia, sarcoma"
Cis-Nats regulation Top
Cluster ID Plue Type Plus Gene Name Plus Chromosome Plus Start Plus End Overlap Length Minus Type Minus Gene Name Minus Chromosome Minus Star Minus End Type
23326 EST chr6 152793794 152794813 303 mRNA SYNE1 chr6 152534936 153050100Sense/Antisense (SA) pairs

Simple Query:


  (e.g. CHD8)

Syndromic Genes

Non-syndromic Genes

AutismKB Statistics

  • Studies: 1,036
  • Genes: 1,379
  • CNVs/SVs: 5,420
  • SNVs/Indels: 11,669
  • de novo Mutations: 5,669
  • Mosaics: 789
  • Linkage Regions: 172
  • Paper Collected: 6/30/2018
  • Last Update: 8/26/2018


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