HsaINT0155902 @ hg19
Intron Retention
Gene
ENSG00000162804 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:24696]
Coordinates
chr2:242012681-242021208:+
Coord C1 exon
chr2:242012681-242012779
Coord A exon
chr2:242012780-242021091
Coord C2 exon
chr2:242021092-242021208
Length
8312 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CTCGTGACCTCTGTTTCCAGACG
3' ss Score
8.06
Exon sequences
Seq C1 exon
AACCCACAGCCTCGGCGCAGCTCGAGAACATGGAGGAAGCCCCCAAGCGGGTCAGCCTGGCCCTCCAGCTCCCTGAACACGGCAGCAAGGACATCGGAA
Seq A exon
GTGAGTCAGCAGCGCTGGTGGGGACTTTGGGACTGACTGACTGCTCTCAGGGGCCTTAGAGGCTGCAGGCAGGAGGGACCACCCACGGTGAGGAATCAGGAGGCACAGAGCCTACCTGAGGGGAGGCTGAGCACCAGGCACCCCGGTGTGGGAAGATGGGGTGAAGCTACACCACCCAAGCAGTGGGACCCCACAGACGGGAACAGGCCAGGGGGCAGGACCCACCCAAACCACCCAGAGTCTGAGCTAGAGAGACTGGCTTTGATGCTGCCTCCCCTCCCCTCTCCTCCTTCGCCTCCACATGCAGCAGAGCCCACCCCAGCCCCTGCCTCTGGGCCCCTCACCCCTCACTTCTCCAAAGAGGAGCAGGCGGAGTCAGGATGGGAGAAGCAGAGGGAGCAGCCACTGGGCGAGCCCCAGCTTGAGGACTAGCTGGGCCCTGTGGACACTCAGGTTATGCAGGACCTGAACTGTCTCCTAGTCCGGGGCTCTGCCTCGTGAGGATCGAGGCCAGCACGTCCCTGCAGGGCACCAAGCATCTGCTGAGCACCTGCAGTAAGAGTTCCCAGACGCTCACGAGGCAGTTCCCCTTCGGGCAGCACCAATACATGTGTGTTCCTCACCCTGAGTCAGACTCTACCTTTCTCCTGGTTCTAATCCTTTGGGGCTGTGTCCTCTATGGACAGCTCTCCTAGCACCCGGTGACCTGTTCTCCCCTGAGTCATACCATAGACTCAGATTGGGATCACCCCTCAACCCAACCCCAAAGAAGTCCTAGTACTTGGTAAAGGTGTGAGCTGCTGAGCGTGGTCTCACCCGCAAGGCCTTGCCCCCAGCTTCTCAAGGACATGTGTACACATCAAGGGCACCTGCGGTGGGGTGTGTTTGCAAGTGGCGGTTTCGCTGAACCCTAAGTTCACCATCCCCCCCCCGCCCTCACCATACAAGGTCTGGACTTGCTGCTAGCCCCTGTGAGCACCAGGAGGACTGGTTTGTGCATCCGACGCAGAGAGTGAAGGATTCTCTTAATTCAGGTGTGGCCCATTCAGAGTGAAGACTCTCGTGTTGATCTTTAAGTGAACTAAAACAAACATTTCATCAGATGATTTGCATTATGTCAGCCCCTTTAAATACCAGGTGTTCATTTCCTAGAACTCAGAGATTGGAGGGGCGTGTGTTACCCTCCTGGGTCTCTTCAGCAGGAGAGATTCAAGATGACCCCCGGGCTGGCCCTGAGGTCACCACGGTCATGTGGTGTTTGCCAGCACGAGATGCTCATGCCCTGGTGGGTGCAAAATGATTTTAAGTGATAACATGAAAAGTAGACTCTTTAATGGCCCCTCGATGCGCAAAGCCAGTCATGATCTTTGGTTCATGTTGCACTCTCACGCTAGCTACCTTTTATTTAGTTATTAGCCTTTGAATAATGACTAAATCAAGAACCCAACCTATAAACTTGGATGTGAACGATACCTTCTATCTTGCCATCATACTCCCTGTTCTCTCCCCTCAGTTAACCATGATCCTGAACTTTGTGCCTAGAATTCCTTTGTTTTTTCAGAGTGGAAGGTGCGGGGAGTGATTCTATGGTACATATATGTATGGCAGAACAATAAGTGAGTTTTCTTTGCAAGATAATTATCTTGCCATGTGTGATCGTTAGACCTGTGTTTTCACTCCGCATTCTCGGACTGAGGTTGGCCCATGCGGTCTGGGCGGCTGCGGCTTATTCACACCTACTATTGAGCACAGAGTCCACTGAGTGAACTGACCGGCTCTTCTCCCCTCTCTGTGCAGAGAACATGTAGGTTGTGTTTGGTATGAGCAGTGCTGCAGTGGATGTTCCTGTACAGGTTTTCCAGTACGTGTGCGGGAGTGGAAAAGCTGGATCTAGGATGAGGATGTGTGAATGCCCAAATTACATGAGAACTAAGTCATTTTCTAAGAGGCGATAGCAGTCTGCGCTCCCTCCAGCAGTGATGAAGACATGCAGTGAATCCAGTCTCTCTAGAACTAGGTTTTGCCGGGTTTGCAGATCCTACAGGCAGAACGGGTGGGATGCACACCCCTGGGATCTGGGTTTGCATCTCCTGGGCACTGATGTGACTGCGCCTCTCCTCATGGGCATCCACCAAAGGTGTTTGCTTCTGTGAAATGCCTGATCACGCCTTTTGACTTTATGTTGGGTTATTTGTACTCTTTTTATTCATTTGTCAAAATTCTTATATGTTTTGATACTGATCCTTTGTCAGGTCTGTGTTCTGCAGGTATCTTCCTCCAGCCTCTGGCTTGTCCTTCCCTGTTCTTGGTGGTACTTCCTAATAGAGAAAAGTTCATAATCAAATTTATCAAGCATTAGTGGTTAACAAGTTGGGAGCCTTCTTTAAAAAATATCCTTCCCCACACCAAAGTTAGAAAGTTATTCATGTATATTTTTTTCACAAAGATGTAAAGTTTTGCTTTTGACCTGTAGGTCATTAATCTGTTAGACTGTGTGTGTGTGAGAAGTTGGGCTACAATTTCATTTTTTATGCATATGGGTAAACTGGATTTTTCATCTCTTCATGCTAAAAAGTCCCTTTTTCCCCCACTGTCAGTATCAAAATTCCACATATAAAAGTAGAATTCTGGCGGCGTCAATTTGATACATCTGTGCCAATACTGCCCTGTGTTCACTCTAACTTTGTAAGTCCTGGAACTGATTGGCAAAGTTCCTTTCCTTTACTCTTCATCTTCAGAAGTATCATTGCTACCCTTGGCCTTTTTTCTTCCACATATACACCTTCAAATCTAGTCACACTCTATGGAAAAGGCCTTTGAGATAATGATGACTGGGTGTGCATTCAATCCATTGACCATTTTTGTGAAAATTGACATCTTTAGGATAGTAAGTCTATATCCATGGACATGGGATGTCTCTCCATATATGACATTATGACTTATTTAATATCTTTCAGTAAAGTTTTATATGGAATTCAGACTTATTCCTAGGTATTTTATAGTTTGATACTATTATATAGTTTGATACTAGTATATACTTTAAAAGTTACTTTTCCTGATTATTTATTACTGGAGTATAGATATTTATTTGACCTTTGCATACTGACCTTATAGCCAACCATCTTGCCAAACTCTCCTATTCTTGTCATACATTCTTTGGGGTTTTCTATATATATATAAAATCATATCCTTTTAAAGATTAATTGTTTGCCTTTTAAAACTCAGACCTGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCTAGGCAGGTGAATCACTTGAGGCCAGGAAGGAGTTCAAGACTAGCCTGGCCAACATGGTGAAACCTGTTGGTGTGGTAATGGGTTAAGGATAGGCATTTAGATCAGTGGAAAAGAACTGAGAGTCCAGGGCCGGGCGCGGGGGCTCACGCCTGTAATCCGTGGAAAAGAACTGAGAGTCCAGGGCCGGGCGCAGTGGCTCAGGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCAGGTCAGGAGATCGAGACCATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCTGGGCATGGTGGCGGGCGCCTGTGGTCCCAGCTACTCCGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGTGGAGCTTGCAGTGAGCTGAGATTGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAGAATTGAGAGTCTGGAAATAAACCACACGTCAATGGCCAACTGACTTCTACAAGGGGGCTGAAACCATTCAATGTGGAAAGAATAGTCTCAGCAAATGGTGCTGGGACAGCTGGATATCCACATGCAAAAAGAATGAGGCCGGAGCCCTCGTACCATATACCTCATAACACAAATTACCACAAATTGACCAACAACCTAAATGTTAGGAGCTAAAACCAAAACTCTTAGAAGAAAACATAGGAGTAAATCTTCATGACCTTCGATCATGAGGGTCCTTAGGCTCAACAATAAAAGTATGAGCAACAACAAAAATCTATATATAAACTACTCTTCATCAAAACTTAAAACTTCTGTGCCTCAAAGGATGCCATCAAGGAAGTGACATGACAACCTGTGGAGTGGAGGAAACATGCAAATCATACCTGATCAGAGACCCGCGTCTAAAATAAAGAGCTCTGACAACTGAACAATAAAAAGACAAACAACCCAGTTCAGACATGGGCAAATCATACCTGATCAGAGACCCATATCTAAAATAAAGAGCTCTGACAACTAAACAATAAAAAGACAACCCAATTCAGACAGGGGCAAAGGACCTAAAAAGACATTTCTGCAAGGAAGATATGCAAATGGCCAGTAATCACACCGAAAAGATCCTTGACATCATTAGTCAGCAGGGAAATGCACATCAAAACCACTAGGATGGCGGGAATTAAAAAGTCAGATAATAATAAGCATTGGTGAGGACGTGGAGAGATCAGAACCCTCTACGCTGCTGGTGGGACTGTAAAGTGGTACAGCTGCTCTGGAAAACAGTCTGGCAGTTCCTTAAAGGATTAAACCAATAGTTACCGCATGACCCAGTAATTGCACTCCTAGGTATATACCCAAGAGAAATGAAAACCTATGTCCACATGAGGTCCTGTACACAAATATTTATAGCAGCACAGCACAAAAGCCAGAAAGTAGAAACCACCAAAGTGTCAATCAACTAACGAAAGGAAAAGTGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACCAGGTCAGGCGTTCGAGACAAGTCTGGCCAACGCGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTCCTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGTGGAGTTTGCAGTGAGGTGAGATCGCGCCACTGCACTGCAGCCTGGGAGACAGAACTAGACTCCGTCTCAAAAAAAAAAAAAAAAGAAAGAAAGAAAAGAAAGGATAAGCAAAACATGGTATATCCACTCAATGGAACACGATTCAACCATAAAACAAGGACGCATGCTGCATGCTACAACATGGATGAATCTTGAAAACATGCTAAGTGGAAGAAGCCAGACACAGAAGACTCTATGTACTATGATTCCATTCATATGAAAGTCCAGCAGAGGGAGCTCTCTAGTGACAGAAAGTACATTAGCGGTTGCTCAGGACTGGAGGGTGGAGGGGATGGGGAAGGCAGTAACAGCTAAAAGGTACAAGGTTTCTTTCTGAGGTCACGAAAATGTTCTAAAATTGTGCTGATGGATGCCTGTATCTGTGAATATGCTTAAAACCAATAAATTGTACACTTTGGGTGAATTTTATGTTATATGAATTATCTCAATAATGCCTGCTTTAAAAAAGTTATGTGCAGGCCAGGCACGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATAGGGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGCATGGTGGCACACGCCTATAATCCCAGCTATTCAGGAGGCTGAGGCAGAAGAATTGCTTGAACCCAGGAGGCGGAGGCTGCAGCGAGCCGAGATCGCACCATTGCACTCCAGCCTGGGTGACAGGGTAAGACTCCATCTCAAAAAAAAAAAAAAAAAGGCCGGGCGCGGTGGCTCACATCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGTGGATCACAAGTTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAAATTAGCCGGGCGCAGTGGCAGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCATGAACCCAGGAGGCGGAGCTTGCAGTGAGCCAAGATCGCCCCACTGCACTCCAGCCTGGGCGACAGAGTGAGACTCCATCTCAAAAAAAAAAAAAAAAAGTAACGTGCAGAACAGTGTTTTCAGTATGTTGTCTTTTGTGTAGGAAAATGGAGAAGGGAAATACAAATTTTGTCCTCATTTTAATAAAGAAATGAAACTAATAAGATGGTTCACTAAATGAGGAGGGAAAGAACTGCATAATGGGACTGGAGATCGGCGAGGCTTCTCTGAATGAACCTTGTTTTACAGTTTTGACTTTAGAACCAAAAAAAAGGTTTTAAAAACAATAAAAAGAAAAGGCAACACCTAAAAATTGAAAACATACTGAAATAAGTAAACCTAGTTATCATGTGGATGGCATAACCACACAGGAAAAAAATATCATTGCAAGCGATTTTAATAAGAGTAGTCTGTTCACCCCTAATGGAATATGGTCTAAGGATAAAAAGCATCGCCAAGGAATGTTAGGCTATACTCAGTGATCTTAATGTTAGTAGTAATACCTGAATTGTTATTTTGAAATGATTGCATGTATATGGTAGGATAAAGAAAATAATTGTTAACGCCACCAAGATTTTCAGTGTAAAGAATTAAAAATATAAAATGAAAGAAGTTAAAAATCTTGTTTGTTTTGGCTGGGCGCAGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCTGAAACGGGCAGTTGACTTGAGGTCAGGAGTTTGAATCCAGCCTGGACAACATGGTGAAACCCCGTCTCTACTAAAATACAAAAATTAGCCAGGCATGGTGGTGCGCGCCTGTAGTACCAGCTACTCGGGAGGCTGAGGTGGGAGAATCACTTGAACCCAGGAGGCAGAGGTTACAGTGAGCTGAGATCGCGACACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCCATCTCAAAATAAATAAATAAAATCTTGTTTGTCTTTTGATTCTGTTAATTTGAAATGGAAATATTAGTATGAACTCATAATGTGTTTATTTTTTAAAGAAGCCTAATTTTCTAGTTCTGTTCATTGAAAGGCCTGAAGCTGTGACATCCCATAATAGGGAGCGGTGTGAGTGCCAGGCTGTGGGCTCTAGATCTCGTTCTCACCAAGAAGCCAGTGATCTTTGGAGAAATGGGTGATTCCAAGACTGAAGCAGGATGTGGACAAAATAAGCCCAGGACATGTTGTGTAAAAAGCAAGCAAGCTTTCAAAACAGCAGACCATGTCCTGAGGGCGGGGAGCCAACCTGAAGGGCTCCCGCTGTCCAAAGACAGAATAAATTGAGCATCAGGAAAACAACTGACAGCAATGGACGGAAGCCCATGAAATATACCAATATCTCTGTGTTCATCGTGATGCTCAGAAAGAAGAAGCAACCTAGTGGGCAACTTTGGAGCTTGCTGAGGACCAACTCGGTCTGCAGGCACACAAGCAAAGGAGCAGGGTGGAGCCTTCACGCTGCCGTGCCTGTGTGGACCAGTCCAGGGTGACCACGGGGTAGGTGAGGGAAAGCCTGTCTTCACAGACCACTCTCCAGCTGGTGAGGGCAGGAGCGACAGGGACAGACACAGGTCTGTGAGAGGACAGCCCTTGGATCAGGGATCTCGATGTCTTGCTCGAGCCATCAGGTGCAAGGCCCGTGGGGACTTTTTTCTGGGTTGGTCAGGCTGCCAGCACTGGACCAGTGACCAGTCCTCGTGTCACTCGAGTGGGACTTGGACACATCACAGGCCGCCTGGGCTGGCTGGGGGTGCACACGCATCCCTGGGCAGCAGCCCTGCAAAGACCATCTGAACCTAAATCCTATCAAGCACCTCTCTCTAGTGAGAGTTCACAGGAAACACAGGGGTGGGATCAAGTGAGCAGTAAGTCACATCCATTAGAGCACCAGGAGGGACCTCAGGATCCAAGCAGCAGAAACCGTGTTCAGGGGCAAAGCCAGCAAGGGTCGGGGTGGGGAGGGGCCACAGGCCAGTGGGGGCTCAGCACTGAAGGCCCCGCTCCTCCCTCCCTCTCCCTCCTCCTTCTCCTCCTCCTTGTTTTTGTTTGTCTTCCTTCCTTCCAGTAATGAGGTCAGGGCCGAGCACACTGCGGCCTGTCTCCTCACCTCTGCTCTCTCTCAACACCTGAACTGGGACCACGCTCTAGGGCCCAGAGGCGTTTGGGAGGCCACCGCAGCACACCACAGAGGAGTGCACGGCCACCCTGCATCAGGTCATCAAGGAAGGGACAGCAACATGTCCATGAGGCAGGCCTGTCCTGGGGTTCCAGTGACTAACCTCTCGTGACCTCTGTTTCCAG
Seq C2 exon
ACGTCCCTGGCAACTGTTCAGAAAACCCCTGTCAGAACGGAGGCACTTGTGTGCCGGGCGCAGACGCCCACAGCTGTGACTGCGGGCCAGGGTTCAAAGGCAGACGCTGCGAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162804-SNED1:NM_001080437:27
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.918 A=NA C2=0.100
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=77.5),PF055076=MAGP=PU(38.2=85.0)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)