HsaINT1042526 @ hg38
Intron Retention
Gene
ENSG00000162804 | SNED1
Description
sushi, nidogen and EGF like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr2:241088365-241095568:+
Coord C1 exon
chr2:241088365-241088402
Coord A exon
chr2:241088403-241091637
Coord C2 exon
chr2:241091638-241095568
Length
3235 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
ACTTTGTTTTTTCTTCAAAGGAT
3' ss Score
9.5
Exon sequences
Seq C1 exon
GAAACAAAGTAAGAGTCAGACACTGGAGAAATCTTAAG
Seq A exon
GTACGTCCCTGCTGCTCCCGCCCCACTACCACAGAGCTGCTGGGAAGTGGGGGGCGACTGCCCAGCCCCGGGATCTCAGAGTGCCGCTGCCTGCTTACTCAGCACTGCTAAAGGAAGCGCGGTCCTGTGCTGCTGTGTTACAGACTCCCGGGCAGGAAGGTTCAGAAGTCCCCAAGGGGAAACAGACATGAACCTGGTCTAGCCACTGACAAATACACCTTCAGGTGGAAATGAGGCTCTCTGTGGATAGGGCAAATCCCACTCTCTCTCAAGGGAAATGTGGCCAAGAAACCCCTAGATCAGCTGCAGTGGGAGGAAGAGGCAGGGGGGTGGGCCCTTGGAGAGGCTGGAAGACCACCTGGCACCTGGGAGGAGGGGCCACGGGCAGCGGGAGGGCCTGGGCTGCTGAGAAATTCCGGGGGCTCCAGGAGAGGGCTGAGAGAGTGCCTCCCAGATCTTGTGAACGGCATTCTGTTGGAACTAAAAGTGGGGCAGGGGCCTTGATCGCTTAATATTTAGAAAGTGTTGAAGACCGCCGCTAGAAAGTCGTCACTGACACTGGGCTCATAGGCATTCATAAATCCTGACGTGAAAGGAACTTCCTCTCGCCTTTGTTTAAGCCAGCATTTCCCAAACTCTTTTGGCAACCAAACCCCATCCTGCCCCCACCTCCCCACACAAACTGCCGAATCTTAAACAACACTGGCATTCTTCACAATCGTTTGCAAGAGACTGGGATATACCATAGAAAGCCATCTACAACCTGTTACCAGTTTCATACTGACCATCATTTTTTATCAACATGTCACTGCATGAAAGATGAATCTCTGGTTGGCCTAGGACAGCTTTGCTCTTCCTGCCCCTTATAGGAGCCCTCACAGTTCATCTTCCTGGTGGCGCAGATGAGTGAGGCACCCTTGGGTAACAAGCCACTTCAAAACAGGTCTATGTTTTGTTACGTGCCTAAAAAAATAAAGGAGAAATGTCATTCAGGAACCTTTAAAAACAAACAGAAGCAAAACAGCTTTTCAGATATAGGCTCACACACACCAAAGGAAGAGTGTCCACACCCCCTTGGGGGAAAGGTCTGGGCCGGAGCTCCGCACATGGCAGGAACTTGAGCTCTGAGTTGGCCATGACAGAGTGCATGCATCTGCCTCTTCGGATGTGGAAAGTCTCTCCATAAGAGAGTAGCCGGCAGCATTCACTTCCTGTTGACTCGAGGGAATCACTTCCCGCTCCCACCTCACCCTCCAAAGACACACACACTAAGCACACTCCAGGCTTGTAAGCAATTTCCTACAGCCGAGCATCACTTAACAATGGAGATGCATTCTGAGAAATGCTTTGTGAGGCAATTTCATCTGGGCGAACATCATAGCGCATACTTAGAACAAACCTAGATGGCACCGCGTACTGCGCACCTAGGCTGTGTGGCAGAGCCCATGCTCCCGGGCTACACACCACAGCGTGTTACTGAATACTGTAGGCGGTCGTAACACAGTGCCAAGTGTGTGTGTATCTAAACGTAGAAAACCTACAGTAAAAATAGATATAAAAGATAAAAAATGGTATACCTGGGCAGGGCGCTTAGCGTAGCTGGAATGCGCAGGACTGGCAGTTGCACAATAATAAATTAGTCCTGCAATAAGAAATTAACCTTAGCTTACTGTAACTTTTTTACTTTATACATTTTTAATTTTTACTTTTTAACTCTTTTTAATAACAGCTTAAAATACAAACACACTGTACGGATGTTCAAAATTGTTTTCTGTCCTTAGTGCTTTTCTCTGTTTTTAAAATTTTTAATTGTTTTTTACTATTTAACTTTTGTTAAAAACTAAGACACAAACACACACATTGGCTTATGCCTACACAGGGGCAGGATCATCCATGTCACCTTCTTCCACTTCCACATCGTGTCCCAGTAACACACATGGAGCTGCCACCTCCTGTGACAATGATGCCTTCTTCTGGAAACCTCCTGAAGGACCTGCCTGAGGCCATTTTATAGTTAACTTTTTTTCATAAGTAGAAGGAGTACACTCTAAAATAATGATGAAGAGTATAGTAAATACGTAAACCAGTAACATCACAAATTATCATCAAGTATTATGTACTCTACATAATTGTATGTGCTAGACTTCTATACACAGGGCAGTGCAGTAGGTTTGTATACACCAGCATCACCACAAACACAAAAAGAATTATTCTAGCACTTTGGGAGGCCGAGGCCGGCGGATCACTTGAGGCCAGGAGTTCGAGACCAGCCTGGCCAACATGATGAAACCCTGTCTCTACTAAAAATACAAAAATTAGTCAGACATGGTGGTGGGCACCTGTAATCTCAGCTACTGAAGAGGCTGAGTCAGGAAAATCACTTGAACTTGGAAGGCAGAGGTTGCAGTGGGCTGAGATTGCGCCACTATACTACAGCTTAGGCAACTGAGCAAGACCCTCTGTCTCAAAAAAAAAAAAAAAAGAAAAAAGAATTCTGTACGATGGCTATGACCTCAGCTCCACTGTAATCTCATGGGACCACTGTCATGCGCGCGGTCCTTCATCGTGCAGTGCCTAACTGTACTAGGATTAAGAATCCACAAACATAATTTGGGTTTGAGATATTTATACGGTGGTAAGTCACCTGAAATATTAATGTATCTTTTTAAATGCTTGCCTAGCACATCCACTCCCATAAAAACAAATCAGAAACCCCCAACTAATTATCAAATACTGACTTATAGAATACCTATTCTTGAAATAATGGAGACAACACACAAAAAAGCAGGAAACAGAAACACACGCACCCAGACACCCATCCAAGAACAACACGAGAATTCATTTCAACCCAGAGCAACCTGACACAGCTGTGCCCTTGGAGAAAAGACCCAGAGTCGTTACCGGAAGGAGGAGGGCAGGGAAGAGGAACAGGCTGTGATTTCACATTTAAAAGTTGCAATGCTGAGCCCACATGTTCCTAAAGATGGGGATGTAGTCGGTGGAGGCTGCCCCTCCCCGTGTGCACTGCCATATGGTAGAATCCTGGTGCTCTAAGAACGCGGGGTCCTCCCCGTGTGCACTGCCATATGGTAGAATCCTGGTGCTCTAAGAACGTGGGGTCCTCTGGGTGACAGAGGCCCTGAGGGCCACTAAGAGAAGCAGGAAGCAGCCCATTTAAAGAGGAGTGGGAATGCCTGTCATTCTCCTCATGCTTCACTTTGTTTTTTCTTCAAAG
Seq C2 exon
GATTTAAGACGTTCTTGTTACACTCCACCAACCTCACGAGTTTCTAACACCCAGGAAGATGAGGTCTAAAAACTGGATGAAAAAGGACACCCTGAGAAAAGGTCCTAGCTGGAGTCAGTCCCCTCTGTGACCTCTCTCCTCAGGCCTCTAGAGGACAGATGGCCAGGCCTGTGCACACACCAGCCCACCCTGAGAGACCCCTCTGGGACCAACCACCTGTGAGTCCTGCGATGCGTTTAAGCAGCCTGTGCCCTCACCCAAGCTGCAGTTCCTGAAGGTGTAGTCTGTGTCTCTGCGGATGAGATGACAGCTCGCCATTCCCCGGAATCAGTGAGGCTGTCAGTCAGCCACGCTTCTGCAGTATGCAGAAACCTGTTCTTAGACTCCAAAGCCAGAGAAAGAATTCTCCCTTCGAGGCCCAACAAATTGAGAAGGAACTGTGATGGACCACTTCCAAAACAGAGACGGGGGCAGGGGCTGAAGGGCAGAGACCAGGTGATGTCAGAAGGAAAGCCGGGTTGCAGACACAGCCGCCCCTGCTCTGGTCCTCCAGCGTGTTTATGACGCTCGTGCAGGTCGACGAGCCATCCTATGGACTAGTTAACACTAAGGTGGAGTTCAGACTTTTTTAGACAACGGCGCGACTGGCAGCCTTTCTCTATCAAGGGTCAGACGGTAAACGTTTTCAGCTTTGCAGACCAGAGGTCCCTGTGGCTACAGTAGCGCAGACACAGCCACAGGCATGTCATTGAATGGCTGCGGCTATGTTCCAATAAAAACTTATTTACAATAACAGGTGGTGGCCAAATTGGCCCATGGGCCTTATTTGGTGAACCCTGTTCTATGAGATCACCTAGGCTTCAGCCTTAAACAGTGGAAGCCATCCCCTGAATGACAAGTCACAAGGGTATCAAAGAAAGACCCCTGAATTTTCATGGAAAAAGCTATTCAGACCCCTGCTTGGAAAGCTAAGGCACACTGCCACGAAGCAGCAAGGACGCCTTACAAGTCTCAGTGCAACAGAGATGGACACCTGGGCTGGGCTGGACAATGTTTAAGGTTCCTTTTAGTCCATGACTCAAGTGATACTGTTTTAGGCTATCAGGTAGTAAACACGATCTTAGACATCCCCATCTTTGTAAGCAGAACAGTACGGCACTTCACCACATCTGCTTCCCACCATGCTTCTAAGCAGCTGTCTTCCCCCTGCTAATGTTACAACCAAAGCAGCCACCCCACCTCCTCTCGTGTTGAGCCTCACGACCGCTGACCCAGCTGGAAAGCCAGCGCCCTGCCGCGTCACCCTGACTCTGCTCAGAGCCAGCATTCCAGCCACAAAGAGGGCCTCCTTCCTTTCCTCTTTCATAAAAATGTTTTTTGAAGAGTTAGAGTATATTTTAGGCTTTTTATCTTTATTAAAATTTCATGTGCATGTGTCTGTGTATTCTGCAATTTGTCATTTTCAGAAAGAAGGAACAGGCAATTCGCGAAGTTTCACCTGTACTCCCGAGCTGTTCCCCAGGCTCCAGACCCACTTGAGAGCAGAAGGTGGAGCTCAATGAAGGGTCTCGAGCTCAGCGAAGGGTCACTGGGTGAACTGAGAGAAACCACGTTCACAAACGCGTACTGCGGACTTCCTGCCGCCCTGGGACCTGTCACTGTTTGTCCATGTAAGCTACAGCATTACTAGCAGATGCTAAGATCGAGTGATATCACTGGAAAAGTAGGTGAATCCTACTAGGAAACTTTCTACTCCCTACTAGGACCTCAAGCCCCTCAGCCACACAGCAAATGCTAATATGCTCCAGTGTTAGCTTAGAAGCCTTGTGTCAACAAGAACTGGCTCCTGAGTCCCAAGCTTGGTGCCACACAGCAAATGCTAATATGCTCCAGTGTTAGCTTAGAAGCCTTGTGTCAACAAGAACTGGCTCCTGAGTCCCAAGCTTGGTGCCACACAGCAAATGCTAATATGCTCCAGTGTTAGCTTAGAAGCCTTGTGTCAACAAGAACTGGCTCCTGAGTCCCAAGTGCTGTCACAGGACTTGCCCATTGGGATGTTTTCCACATTAAATATCAAGTAAAAAGACTTCCTGGTGCTCAGGAATTACAGTTCGTTCTTGAAACATTCCAAAGAGGCCACCACAGCTTTTCCCATGTGGCTTCTTTTAAAAACTCAAATGGCTTCCTTGAAAATACTCAAAGTCCACCCAAGGAAATTAGTAATAATAGAATCAGAAAACTGTCAGGAGCATAAAGATTTCTGTATCAAAATGAAAGAAGCAATCCTGAGTTGCTGAATTACCCATCTGCTAATGAAACCGGGATGGACTGATCATCTAACCAAGTGCAGACTGAGGATTCTACTTAGTCCTCCGACTGGGTACAACAACAGCCTAGGTTCTAGGGAGGGTGGCAGTGACCGGGATGCCACAATGGAAGAGAAAATGAAAACACTGGCACAGTGAAATGTCTCATTTCCAAACAGTTTTGCCTATGGCCAAGCAAGGCAATAAAGACAAACTCTCCCTTTTCCCCATTGCGTGTGGGCTGCCAGGTACAAGTAAGGGAATCTTTGCTGTGCCCACTGTCCTCCAGTAGAGAACCCAACAGGCAAGGGCCCCACTCAGGTATCAGCTCACCTCCTGCACCTCCCCTTAGCAGGAACTCCTTCCACTGGCAAAGGACTGCCACTGCCATCTGACTCAACTGTGGCGATGTGGACGGAGTCACCGAGCTGCTTTTCTTTTGCAAAACAAAAGTCTTTTTCTTTGCAGTCACGCTGTAAGACGAGGCTGCTGGAGAAAACAAAAGCACCTAGATTTCAGTGCTGAATCCCCACAATTGCATGCAGCTCACACCTACCAGGGGTATTCCAGTGCATAGGGGAAAGGAACCCGGCTGAAAAACCAGCTCCTTATTTTTCTTTTAAATAAAATAATACGATCCTAAGTCCATTTACCATCTGAAGTTGTCACGAGTGAACAGTCACATTACTGTTGTGGACCAGGCCTTAGATGAGTTTCTCAGGCTCAGCACTGACATTCTGGGCCGGATCATCCTCTCTTGTGGGACCATCCTGTGCACTGCAGGATGTTTCACAGCACCCCTGGCCTCTACCCACTAGAATCCTACAATCTACCAGATCCTAGGATCTAGTTGATCCTAGAATGCTACCAAGGAGACTTGAATTTTGGTCCCATCATCAAAAATGCCTTCTGCATCAATCCTATGCCAGTTTCCCCTAAAAGAGGGCTAACTGGAATGTTCTAGGATGTACCAATCCTCCAGGACCCTCTTAGAGCTCATGCCATCAGAGACAGGCCTCTATCTCAGGGATCACCCCGGCTGACATCAAATTCCTCTTCTCTTTTCCCAACATTTCAAATTGTTCTTCGGACTCATTGAGTTCCCTAAGGTGACACGCCCCCCCCCCCCCCCACACCCACCTTGGGGGGTCACGGATTGCTCCCTGTGGCCCTGGCTTCAGCCCACCTGCTCCATGACCCTATGCTCTTCTCCTCTGGTTCTCGAAGCTGTCTGTAACCAGGGCAGGGGAGATAACTGTATGGGACCATTCCCTGGCCTCCACCTGCCCCAGCACTCTCCAGGCCAGCACAGTCTGGCACTACAGACTACAGGGCCGGAGACACCAGGCTTGGAAGTGACCACTGGCCAAGAGCTGACATAAAAGCCAACTTCCCCAAACAGGAAGGGCCTGTTCTTCACAAAGATAAAGAAAACTGCCAGCATTTTGCTGGCCTTAAGAAGCCATGCAAAATTAACCAGTACATCATGAATTAACTTCTTTTACTCTGCTGTGCACTGAATACCATTATGAAGCAATATACTTTTGGATTAAAAATAAGCATTTTTGTGGAAAATCTGCTACATGTTTTCATAAAATAAAGTGCTATGATGTACTAAAACCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162804:ENST00000310397:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.778 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
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