GgaINT1010597 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4799196-4804042:+
Coord C1 exon
chr23:4799196-4799372
Coord A exon
chr23:4799373-4799869
Coord C2 exon
chr23:4799870-4804042
Length
497 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CACCCTTCCCACTGTCCCAGATT
3' ss Score
8.41
Exon sequences
Seq C1 exon
GAGAAGACCCAAAGTCCCATTCAATGGCTACGCGGGCCATGAAAACACCAATGTCAGAGCAACGTTTGAAAACCCCATGTATGACCGAAACCTGCAGCCCACGGACATCATGGCCAACGAGACAGAGTTCACAGTCAGCACTGTGTGCACAGCTGTATAGCACTCATCCCCTGCGTG
Seq A exon
GTGAGTGGGCACAGAGGGGACGTGAGAGTGGAACGGTGCCAACCGTAGCTCAGCCCGGTGAAACTGGTTGTGGATAAAATACTGCTCTTCTGCTGAGGGGGGTCTGTGTGCTGCTGACCCCACTCCCAGGGTGTCTCCTTCCCGCTTGCAGGCTGTCAGAGCCTTGTGTTTGTCCTAAGCTGGATCAGTGTGGTTCAAAGGAGCGCTCTGAGGTTTGGATTGCCCAGGAGGTCTCTGCCCTGGGCACAACCCAAAGCAGAGCTGCCATCTCTGGGCAGAAAGGTACAGAGGGGGGTGACCCAAGGGGTCTGGGAGTTCTACCACATAGGCGTAGAGGACTAAGTAGCCTGTAGACAAAAGCCCCAGGCAGCCCTCAGGGGCACTTCTAGACTGGCAAGTGCTCACTTTGAGGTAACAAAGCTATCGTGGGTTCTCTCAACGTTTCTGTGTGCACTGACAAACCGTTTCTTTCTCTCTCACCCTTCCCACTGTCCCAG
Seq C2 exon
ATTCCTCCAGGGTTGGTATCTAGCAAATGATTGTGTTTCACCTCACTAGTCTCCGTCCATTCCCTCCCCATCTCCCTCCTTCCAATCTTGTCGAGGCTGCGGAGAAGCTGCTACACCTTGTTGGACTTTGTGTTAACTCCTGAGGGACTGCTCCATCATCCTCGCCCGCCCTCTGCGTCCTGCCACGGGTCACGAAGCCAAGCAAACATCTGCTCAGCACAGCTCCTCTCTCCCACCCTCCCAGTGGGCAGCAGCCTGGTAGTGAGACTGGGGAAGTGGAGGGCCCTGGAAGCGAGGTGATGGGCTCAGTGTGCTGCAGGGAGCAGTGGGGCACGGGGGGTCTCCTCCACTTTTGGAGGATCTTGGACAGACAGGGAGGAAGCCAGGTTGCACTGCACAAGGTGCTGACTGGAGTTAATGGAAAATACCAGCGTGGGGCAAGATGAGTATTTGCTTTGTCTTTAGTTCTGTCGGTTATCTGTTGGTTTGTTGAAGTCAGGGCTTTTGCAGAAGTTTTCAGATGGGACCTTTTCAATGGGAAAACTTTTCGAGCCTTTCTCCCCTTCCTTATATTTAATTTTCTTCGGTACGTTTTTGTTGAGTTTGGGGTTCTTCTCCCCCGTGCCCGTTTCCATGAAGTCTCTTTGAGCCTGAGGCTGCTTTCAAGGGCTGCTGAGGGAACATCCCTCCATCCCTGGCTCCTGCAGGCAGCTGCCCACGTCAGCTGTGCCCAAACAGCCTCGTAAGAAAACTGCTGACAGACATGAAGGGACAAAAACCTCTTTAAAAATAACAAATACGGACCCTCCCTGTCCCCCCCAAACCAGTTGCATTCAAAAGCCTTTGCCCTTTCCATATTGATCCTCCAAATGGCAATGCAATAAGAGTTTTAATTTCTATCCAAAGCTCTTCCCTTTATTTCCCAGGGGCGGAAAGGTTGGCTTGGCTTTCATGAGAACACATAAGGGGACTTGACATTTTTCCTCCCTTATAAAAGAACGATGCTTTGTGATGTCCTCCTCTAATAAAGAGGAGAGCTGCTCCTGTTGATTTAGGGGTTTAGTCTGTTTGGTTTGAGTCACTGTTTCTTCAACCATGCTGGAGTCCAAGAAGGCAACAGTGCCATTTAACCAAACTGTACGTCGAGCACCTCTCTGAAATACTGTTGACTTAGAGCAGTAAGTCAATGAAACAGCTTTTTCTTACAGAAAACTTGAAGGGAAAATAATTAAAACAAATGGAGTGGTGTTTACATCTCTGCTTGCGTTTGAGCACTGGCTCTCCCCTACCTGATGTCAGCTGAGGTTTTGTCTGATGAAAACCACAGGGTAGTTTTTTATGTTTTGTTTATTCTTTTACTGTGTGTCTGTGTATGTATGAATATAGATTTCTTTTTTTTTTTTTTTACTTCTGTCTCTCATTCAGTGCTCTTAGAATAAGCAGCATTCTCCAGCCTGAACAGCCAGCCTGCCAAAAAATGCCGTCTGCTCCCCAAAGCATCACAAAGGTGCTCAATTTGTACCTGAGAGGTGGGTGGAAGCACACGTGTGAGTTGGACCCCGCGCAGCAGTGGGTGCACAGACAGCTCAGGGCCACTCCTGCACTGCTGCAGAGCTTCTCCCAGCTCGTGCCAAATGATCAGACAGGTGAGAAAGGTAACCAGAAAGCTGGTTGTTGCCCCGAGCTCCTTTGGGTAGCCAGGAGGGGCTGCCAGGGTATCTGCCCTTCCCTGAGCATCTCCAGCTCGCAGGACGTGGCCTCCAGGGCCAGGTGAAGGTGAAGTAAGAAGAGGGATCCCTGAGTGGGCTGTGGTCTGGGGGTCAGGGGCCAGGGCTCAGTGTGTCCAATTCCTCTCCTTCAGCTGAGCTGCTGCAGTGAAGTTGGGGGCTGCCCCTCCCTCACACTGATCTAACTGAGATCAGGACGTTCCCCTGGTTGTCCTCCTCCTGTATGCAGAGATACAGCTGGTTCCTGACTTCACCTCTGCTCTCTGACCCCTATTTGACTTCAGAGACCCCTCCTAAACCTGAGTCATTCTGTGATTTCTGCCCTCAGCCAAACCCACAGCCTATTCTTCCTTGCCTTTGCTAAGTCCCCATAACACAGGGAACAGACCAGGCTCCCTTGCACAACACGCCTCCAAAGCTGCACCCTTTTGCAGTCCCCTATGCCAATGATTTCAGCATCCTGCCTCCCTTCTCAGCACAGACCTTGCAGCATCCCACAGCAGCAGCAGAGCTTGAATCTGCCCCAGCTCCTATCCCTGAGCTCAAGAAAAACATCCCCCAGCTGCCACCAACCCCGGGCTGCTGGCACACTGCAGGCAGGTTGGGCTGTGGGAGCGATGCGCACACACACACACACACACACACCCCAACAGATCCCACGTTTGCTTTTCAGACCTTTCCAAATCCCACTCAGTCAATGTAATAGCAAGGAGAAGCTTGTGTCAAGGTGTGTAAAACAAGCCTGAGATGTTTCAACAGCAAAGCAGGGAGAGCAGGAGCTGTCCTTATATACAAGGTTTGCTGCTTTCAACCTATTATGTACCATTTTCTACTGTTCCCAAGCAACAAAGGCAGAGAAAGGGGTCTGATCCCATTTTTTTGCAAGCTGGCTGGGACGTGAGGTGTGCCATTCTCCATTCTTGTGCCCAGAGGACTTGCATTATGTTCAAAAAAGAAAAGGAAAAAGAAAAAAAAAAGAAAAAGAAAAAGGAAAAAGAAAAAAAAAAGGAAAAAAATTTAAAAAAAAAAAAAGAAAAAAAATCCCTCTTTTGTACAGAGATATATTTTTATGAAGCAGAATTTGTACAGTAAAAAAGACACAATGTAAATGTTTTTTCATTATTGTAGTAAGCAGTAGTGGAAGATCAGCTTCTTTTTGTAAATGTAATAAAATGTATAAATATGGTTTACATAAAAGTGTACATATGTAATCTATACATACACTTGGCTTGTCTGCAATATATACAATTTAATTTATCTGTCTCTGTATATGAGGCTTTTCATCGTGTCCAGGCATACTTTACTGAATTTGAAAGCTATTTTAAATTTTTGAATTAAAATAAAATATAAATTTTTGCATTGCTTTTCTTACATTCTTTTTTTCTGGTGCCTTTTTCACGAGCTGCCAAAGTTCCCCTCCAGGACTGCCCGGGTGCTGAGCTGCACACCATGCCGCGGCCCAGGATGCACACAGCAAGGCTGGAGGTTCTGTGCTGCAGCAGCTCATCCCAGCTCTCACACACACAGCAGCCCACGGAGCAGCACTCAGGCTGTGCTCCTGTCCCAGCACCAGCTCAGCACGCTTCTCCCTGCCATCCCCACGTGGTGCCCTGGGAGGACAGCCCCGCTGTGGATGCACTCTGCACCACGGGCTCACCCACGAGGAGCTGAACCGACCCGACGTCCGTCTGCTGTCCATCCGTGCCCTCCTCTCTCCTCAGCTGCTCCGCTCTGATCAGCTGTGATGCGGTTCCAGCTGTGCTCTCATTCTGCTCCCCTCACCCCCAGCAGGGTGGGGATGGGCGCTCGGTGTGCTGGGAGCCCATGGATACCTCGGCTCAGCACAGCCCCTTTGAAAGCAGGTGCTTAAACAGGAACCTCCACCAGACAAACAAAACCCTTGAAGCTGATTTCGGTCTCCACCTCCCTATGAAAGGAGGGCACTCTGGGAGGGCACCCGAAGTTCCTGAGTTGTTCAGTGCTAAATGGACACGTTTTCATCTGTGGATTCCCCAAGAAGTTTGCCTGCACGTTCTCGCTCTGACCAACACTGAGCCGTATCCCAGGGGTTCCTGCACAGCACTTTGGCCTCCCTGCTGCTGCAGCACAGAGCCTCCTGCTCAGCAAAGCTACCTCTGCACAGCCCGGGTTGGAAGCATCGGTTTGCGATGGTCGGAAAGGAGCCCACTGCATCCTGCAGACATCTCTGTGCAATGCCTCTGCTCTGCTCTGCTCCACGCCTGAGGTTGGGGAGCTGGGAGTGGTGCAGCACTGTGGGGTGACCACCTGTCCCCCCCGCTCCCTTCTGTCCTTCTGTCTGAGGCTCCAAATGAGATAACCAAGGATTTAAAACGAGACATCTGCACCAGGGCAAAGCTCCCCTCTCTGCAAACCCCAGAGAAAGGCACAGCCAGACCACAAACCATTTAATTGCTGCAGCAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:70
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.092 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
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGCCATGAAAACACCAATG
R:
GCAGATGTTTGCTTGGCTTCG
Band lengths:
358-855
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]