GgaINT0078139 @ galGal4
Intron Retention
Gene
ENSGALG00000016341 | CSMD1
Description
CUB and Sushi multiple domains 1 [Source:HGNC Symbol;Acc:HGNC:14026]
Coordinates
chr3:89613508-89616154:+
Coord C1 exon
chr3:89613508-89613695
Coord A exon
chr3:89613696-89615959
Coord C2 exon
chr3:89615960-89616154
Length
2264 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
ATTTTCATTCACTTTAACAGAAA
3' ss Score
8.02
Exon sequences
Seq C1 exon
TTTCAATATGGAACCCAGTTATGATTTTCTACATGTTTATGAAGGGGAAGATTCCAACAGTCCTCTAATTGGCAGTTTTCAAGGCTCACAGGCTCCTGAAAGAATAGAAAGCAGCGGTAACAGTCTGTTTCTGGCTTTTCGCAGTGATGCTTCTGTTGGAATGTCAGGATTTGCTATTGACTATAAAG
Seq A exon
GTATTGTTCTCATCCTAATCTGTGGTAACATATGAAAAGAAAGAAATGTTAATTAGGATTTACTGAGACTCAAATCTATTTAATTCTAGACGTACTCATATTGAACTGCCAGACACCCCTTTATATTAAAACAGGTTTTAAAAACAGTTGTCAGTAAATGTATTGAGGAACATGAGGAACATAGAAGCCCTCTTTCATGAAATCTTTCACATTACTATGTGCATTTTCAGCTTCCAAAAAAAAAAAATAAATAATAATATTAAAAAATTAAAAACAGGAGATGCATGTAAAAAGCAGCATTTGCAAAGGGATTGTCTCACCCAGTTGCAAGACATGACTGGTGGTGTTTCTTTGCTGATGCATACCAATACATTTTCCTTTCCACTTTGCTTTAGAATCTGCATACATGTCTTTTGAGTAACTATTGCAGAAGACCGTTTGCATTTTTGTTTTCAGGGAAGAATAGAGAGAGTGGTAACTGCTTCTAGCCAGAGAATAGGTTATATTTTCTTTTAATTAAAGACATACACACATAGACACACAAGTTAAAAGCTGATTTGTTTCTGATCCAGATGCTGTCTTTGACTTAATTGTCTTCTCTGCACAGATTCAGTCAAGCTGTTTCTCATGAGTAAAAGTGCTGCCTCAGCTTCTTATTCTTGACAATAGAAGTAAAATATATAGTGTACATGTCAAAAATGTAAGAACAAAAAAACACTTAAGAAAATAGAAATGACAGTGAAGCAGAGGGAGGTTAAAAATAAATGTTACATTATTTTCATGTTTATCCTGCATCTTTTATCCATCTCTACATGCTATTCTGCGAATTGGCAAGCCTTTTCTTCCCAAAGCAGTTATCACACTGCCATAGATGATGAAATTCTTTTCTATTTATTCCTATCTAAACTTGAAGAAAATATATATTTTTAAAAATGGAATGGCTTGTTCTGAAAGTCCTGGCCTGCAAAGATAGAAAATGGAAAGTTGAGCAGAAGGAGATAAAGAGATAAAAGAAACTCTCTACAAATACAGATGAAGTAATCTAAGTACTTCCATATTTTAGCTCGGTGTGTATTTTCTATTCTCAGTGCAGTCTGATTCACGTACCTTTATGCAATCAAAATGGAAGAAAAAGAAAATATGTTATCAAAACAACATATTTTGAAGTTATTATAATAAATAAGCAGTTTATGCCTAATAATTCCACACTATAATTATGTTAATTAATATTTTATTTAAAAAAATATCTATTTTCATTTCTGCTTATTGACATCCAGATTGACTTTTTGAAAATTTCCCTTGAGTATTTTATTTAAAATACTTGCTATATTAATGTTAAATAAAAGAAGGAGGTGTGGTGTAAATTCTGACTATGAATTGCACCCTTGAACTTTTCAATAAAAAGACTTTGTATCCCATTTGTATTAGGTGCATCCTTCCCTCCTAGAGTTCAGTTATTTAGCAAAATATTATTTTCAGAAGTCATCTGACATATTTTTCTTAGGTTATAAAGTAACTGAGTTGTATTCAAGTCATTGTTAACAAAATGTATGACATCTGATATATCAGTATAATAATACTGATGCTGTTTTCATTTTTTTACTTATAACATTCTACCCCTTAATCCTACCATTTTTAAGATCATCTCAATCATACTCTTTAAACAAGGTCATTTCTAATATACATTTTTCTCCTTTCTCTTTTCTTTGTATTTTAATATGGCTTATGAATGAAATAACACCGTTAACATCAATGTCAACACTCACTTTGATTTAAAGATTTCAAAAATATTAGCTAATTCCAGAAAGTAACTACTGTGCTTACTTCATTACCCTCCAAGCTTCAGCTGTTAGATGTTCTTAAGTATGAGAAATAAAGTAAGAACACATTTTATAATTTTTAGTTATTTCATAGTACGACAGCTTTCTAACCACATCTTACTGATACTGAGTATGCTGTTTAGTTTAAAAATATCAGAGTATTAAGGTGTGGATTCTAGAAATTAAATTTTCTTCTGCACTGCTATACTTCACGGAAGTCATTAAACCTTTGGGCAGTTCTGCTAACAATAGGTGGAAAAACTGATACATATTTGATCTTTTCTGTATGATTTCCTTGTCCACATAACCAATTTTATGCAAATATCCATGATCTTGTAAACATATAGAAATGGAAAAATGACTGACTGGAAAAAAAAAGCACTGAAAAAATTCTTTTTTTTAAGCTGAAAGGGTATATAGATTTATTTTCATTCACTTTAACAG
Seq C2 exon
AAAAGCCACGGGAAGCTTGTTTTGATCCTGGAAACATCATGAATGGAACAAGAATTGGAACAGATTTTAAGCTTGGTTCAACTATTACTTACCAGTGTGACTCTGGATATAAAATTATTGATCCTTCAACTATTACATGTGTAATTGGTACAGATGGAAAACCAGCATGGAACAGAGCGCTGCCATCTTGTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016341:ENSGALT00000026359:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(57.5=95.3)
A:
NA
C2:
PF0008415=Sushi=WD(100=87.9)
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]