GgaINT0078150 @ galGal4
Intron Retention
Gene
ENSGALG00000016341 | CSMD1
Description
CUB and Sushi multiple domains 1 [Source:HGNC Symbol;Acc:HGNC:14026]
Coordinates
chr3:89653616-89658835:+
Coord C1 exon
chr3:89653616-89653732
Coord A exon
chr3:89653733-89658625
Coord C2 exon
chr3:89658626-89658835
Length
4893 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
TTCTTTTCCTTTTGCTGCAGGTG
3' ss Score
11.6
Exon sequences
Seq C1 exon
CTAAATGTGGTGGAACTCTGACAAACATGGGTGGTGTGATCCTAAGCCCGGGTTTTCCTGGAAATTACCCTAGTAACTTGGATTGTACATGGAAAATTTTATTGCCTATTGGATATG
Seq A exon
GTAAGCAAACTGACATTTGGAAAGCAATTATAAATATGTAAATCTGATTATTATAAATAAGAATTTCTAGTATGACACAGATAATATCCAGTTGAATGTACTGTCAATCCATTCTGAGTTGGAAATGTTTCGCAGTTTAGAAATGTGTGTCCAGCAAAGCAACTTGTTATTTGTAAAACTCAGTGTGTCTCAGAATCTTATTTCAAAGCAAATGAAATCTGCTGCACAGATATATGTCAGATAAAACAGATAATTTAACTTCTAATTTTAATTGAGGTATTCTGTTTAAGATCCATTCATAGTTCTTCAAGTGATCTTTGAACACTGTTTATAATAAGATAATTGACAAAACATAATTTCTAGCACTCTGAATTTGGTTAAAAGCATTCTAAAACTATAGTCCAACTCCCAGGTAACAGTGGCCAAACAGAAAAATGTTTGCCTTATAACCATTGTCAAAAATATCTTCAGAAAGAAATAATAGTGTTAAGAAGATAATCATGGATAACAAGCAATCTATAACTTCCAGTATAAAACATTCTTCTGTTATTATCAGAAATAAAAGCTGCATAAGTTTTCTTGCTGTGAAATGTTATTCCCATACTGTGAATTCAATGCTAATTCTCAAATAGGAAAACTATTTTTAAAAGTTTATATTAAATTCACTACACCTGTCTCTGCAAATGAGTTCATTTTGTGTGCTTTCAATTTGCTTTATGGCAGGCATTTATGTAGTAGGATCTACTACTTACATCAAGTATGTTATGCTAAGTTAACTTGTAGACATACTGTAGCATTACTGAAGATTTTGAAGAGTGGTTGTCATGTCTGAAAACAAAATTAGAGACAGATTGTTGCATGATATAAAGAAATTGTTTTAGGTCTGATCCCCTCATAGGGTAGCACAGCTGCCAAAACTGGCTTGATAATAATCAATTTTAGAGAAAAACAGTGTGAAAATGTTAGTACCTATCAACTCTTAAGATTTCAGACAGAAACTGTTAGAAATCGTTGTTCAATACTTCATGCTTACTTACAAGAAATGCTTGAAAGGATTCAGTGTAAATGTGAGGAGGACTAATTGGGAGAGAGACTTAAAACAAGCATGTGAAAGAGTGTGTTCAGTGATTTGTAGTCCTGTAGATACTTGAACATATGTACAAAGCTACTGAATTTGGACATGTGCTATTATTGATTTTAAGTCAGACAACCTTTTAAAGTTTTGCACAAAAAATGTTCTGTACTACAAAATCATGTATATCAGGAGCTACAGCAAGATGGAGGAAAAAGTAATGATTAAAAATAATTCAACAGAAATCTTAAAACAGATGCCTCTCATTTTTCAGTGTGTACTTGGTTAAACTTATCTATCAGAATTACAAATAGCCCTGCGCTGGTTTTTACATTCTAAGGCTACATTTGTAGAAAATATGGACAAAATTTCATGGAATATTTGCACAGGAGTTTCTTATATCCTATTATTAACCCTCTCACTTCTCAGAAATTTGTAAGTAGCAACAAACTGAAAAGTATAAAAGATTATTTTGTTTGGCAATGGATTTAACGGGTAAAAATAATCTTGCAATTGGTCTATAATTGCTTTCAAAAATACTGGAAAAACACATTTTTTACTGTGAAGTTGCTGCAGGTATTTTTTCTTCACAAAGTGCCTCAAGTAATCCACAGATAATGTCTTTACACTAGGGTTGGTCAATGTGATTGATATGATGTTTCACAGATCAATAGCTTCCACTGCAAAATCTTGGCCAATATTTTGAGTATAAGCTTGTCAACTGTAGACAAAGGAACTGTTTGTCTACATTCATCCTTCATGTCAAAACAAATCACAGAAACAAAGAAAATTCTTACAAAATTTAATGAAGTTCCAAGATCTGTTTTCAATTATTTTAATAAGATACTGAATGAGTGGCACTGTGCACAAAAAGTGAGCTAGAGGACTTGCATGAACATGTACTGACTTGTTCAAATTCTGCTGATATAATTAACCTCAAGGTGACTTCATCTCATAGTAAATATTCCTTCACTTCCATCCATTTCTCTGCTATTTATTCAAACTTTGTAACTTGATGAAGCCCATGATTTATTGACTAGGTACAAACACACTGGTGTGCTTAAACAAACTAACAGTAAAATTGCAGGAGCTAAAAATCTCCCAAAGTTTATTGCTCTCTTCATTATGTGAAAATATAGTGATAGTTAAAAAAGAAAGCACTCTGAAAATCCAAACATTTGTGATAGGTTGAAAGTACATCTTTTCAAGTGAGTTGTGATTTTTCAGTGATTTCAGGTATCTTCTAATTAACATTTATTAAAAAATTAGCTCAGCTAATTCTCATTATTTAGGGTCTACTCAAGCAAGGGAGGAAATCCCATTGAGATTAGAGCAGGAACTAGTACAATTACTTTCTGACTGGATAATAATTAATTTTCTTTAGCTGTGTTGTGTATAATTTTATGTAAGTAATGATTTTGTGTAGAAACCACTTTATTTGACTTATAAAATTGCTAATTGTAAGCCATATACAATCGTAAGCCAAATACAAACCTCCTTTCACGTAGTTGTAGAGGGCGATAAGGTCTCCCCTGAGCCTCTTTTTCTCCAGACTAAATAATTCCCAGTTCCCTGAGCCACTCCTCATAAGACTTGTGCTCCAGGCCCCTCACCAGCATTGTTGTCCTTCTCTGGACACACTCCAGAGCCTCAATGTCTTTCTTGTAGTAAGCAGCCCAAAACTGAAAAAAGTATGCAAGATGCAGCCTCACCTATGCTGAGTACAGAGGATTGATCATATCTTGCTCCTACTGGCAACGCTATTTCTGATACAAGCAAAGATGCCACTGGCTTTCTTGGGCACTTGGGCTCACTGCTGGCTCGTGTTCAGCTAAGTGTTGACCAGCACTCCCAAATCCATTTCTTCCCCACAGTCTTCCAGCCACTCTGCCCCAAGCCTGTAGCATAGCCTGGGGTTGTTGTAGCCAAAGTACAGGATACAGCATGTGGTCTATTTGCACTTCGTCTCACTGGCCTCAGCCCATTGATCCAGCCAGTCCTGATCCCTCTGTAGGGCCTTCCTACCCTCAGACAGATCAACACCTCCTCCCAGCTTGGTGTCACCTGCAAGTTTACTGAGAGTGCACTCAGTCTCCTTGTCCTGGTCATCAGTAAAGATATTGAACAGGACAGACCCCAGTACTGACTCTAGGGAAACACCGCTTGTGAACAGTCGCCAGTTAGAACGTATGTACATCTAGCAGTATAAATTCCTTCTCAGGAATTCAGTAAGTAAATGAAGAAGATTGATTCCATTTTAAAGGCACTCAGTGGTTCACTAGAGACTGTTACAGAAAATTTGGCTACTTTTATTCATAGAATGGTTTGGGTTGGAAGGGACCTTTAAGATCTTCTAGTTCCAAACCCCCTGCTGTAGTCAGGGACACTTCCCACTAGGCAAGGTTTCTCAAAGCCCCATCCAGCCTGGTCTTGAATGTTTCAAAGGAGAGGGGGCATCCACAACCTCTTTGGGCAACCTGTTCCAGTGTCTTATCTCCCTGACAGTAATGAATTTCTTCCTGATATCTAGACTCTTCCATTTTAAAGCCATTTCCCCTCATCCTATCACTTCATGCCCTTGTAAAAAGTCCCCAGCTTTCCTGTAGCCCCCCTTCGGGTACTGGAAAGCTTGTATCTCTTTCCTAGATATGTAGGAAGTAGAATCAGATGCTTGTCACTTATAGCAAAAGTATAACATCAAGGATATGTCAAATCTCTTTCAAAGTCCCATGGTGTTGTTATAAAATCTCTGGTCTGAATCATTAAAAGCTGATGCTGATGACAAGATGTCTCCCAGCTGCTTGGTGCTCTACCTCATCTTAAATCCCAAAAGCATTGTAAAATAGGTGACTTCATTCAAGTTAAACTAACCATATCAGACACCATACAGGAGATGTCTGATACTGACACTTTGATGTGTTCGGTATGTGTCTCTCTATTGATAGCCTTGGAATAATTTTTGCTATTCAGGAACTGACTTATTCTTATTTCTCTTGTACTGCAGAAAAGATACTAGAGCTAAATATCCTGTACTCTTATGAGTGGCCTAACAGTTTATGTAATGATTTATAATGATTTATTTATTTTCTCCTCCTGTAAATATATACATATATATCTTTTTTGTGTAAATGATTAGATATCAAATCACTGAGCAAAAGAAAGGAATTATAGAACAAAAAGTAATGAACTAATTACCCTTATAATTAATCTACATGATATTCTTCTGAGATGAAGAATATATCTCTACTGCTAAATGAGAGAGTCAGGGAGAAGCTTATGGCATTTAGTATTTCACATCACTTTAACTCAGTCATTTTGTTTTATTCCACTCCAAGCTCTTCAGAGGCATGTCCTGCTGTAGAGAAATGCTATTTCAGAAGTATCTGAGCATTTTGTGGCACAGCAGGATTTGTGATATGCACCTTTCTTGAGTGCTTCCATAGGCCAGTTTAGGACCTTGACAAATACCAAGTCACTGACTTTGTGATTTCCTTTCATTGATCCTTTAATGTGTGATTATTATTTAGAAGTTTATGATATGATAGAAACAAACAACAACAACAACAAAATAAAAGCTTGCACTCATGCAAAACAACTGCTTTTCCATAAATTTACGTATCCTACTTTGAGTACTGACTGAAATATAAACATACTGCTAATAATAGTTATGACTTTTTTTTTTTTTGCGTATTTAAATGCTGTAGAAATAAACATTTTTACTTTTCCTTTTTTTTTCCTTCCTTCCTTCCTTGTCTCTGTCTTTCTTTCTCACTTTTCCTCTTTCCCTCTTTCTTCCTTTATTTCTTTTCCTTTTGCTGCAG
Seq C2 exon
GTGCACATATTCAATTTCTAAATTTCTCTACTGAAGCAAATCATGATTTTCTTGAAATTCAGAATGGGCCTTACCACACCAGCTCTATGATTGGCCAATTTAGTGGAATGGAACTCCCATCACCTTTACTAAGTACTACTCATGAAACACTTGTCCATTTTTACAGTGATCACTCAGAAAACAGGCAAGGATTTAAGTTGACATACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016341:ENSGALT00000026359:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(34.9=92.5)
A:
NA
C2:
PF0043115=CUB=PD(64.2=95.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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]