GgaINT0103008 @ galGal4
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132817418-132818935:-
Coord C1 exon
chr2:132818823-132818935
Coord A exon
chr2:132817506-132818822
Coord C2 exon
chr2:132817418-132817505
Length
1317 bp
Sequences
Splice sites
5' ss Seq
TTTGTGAGT
5' ss Score
5.91
3' ss Seq
TTGTTTGTTTGTTTTTTCAGGTT
3' ss Score
12.03
Exon sequences
Seq C1 exon
GAGTGTATAAAAGCCAGGAAGCTCGACTCATGCTCCACATATATCTCATTAAAGCACCATCTCATACATCTGTGAGCCAGCTGAAAGAAGAAAAATGGGCTATGGATGGTTTT
Seq A exon
GTGAGTATATTTTTGCTACAAAATACAGAAAGCAATTTTTTTATTTGAAATCATGCTGGTACCAAAAATACTGAAATATGTCTAATATAATCATGTTAGTGATACTATTTCATTAAATTAAATAAAGAATTCATTGTATATTGTAGGAGACCAGTTTGAGGAAAAGCACAGAAATAGGCATCCATACATAATATACTGGTAAAAAGGCTAAACTCCTTCGGTATGTATAGGCATCTACAAACTTTAGGCTTCGTGAACTTGCTTATGAGGTGTAAATGCAATAAATTTGTGTATAAACTACATATATATAAGTACACAGAAAAGTTGTGTGTGTTATCTACATACCATATACTATTCATCTATTGCTCTTATTTGAATGATTATGGGTTTTTTGTTTTTGTTTTTGTTTGTTGCTGTTGTTTCTTTTCTTTTTTTTTTTTCCCTCTTGGTTTTGTTTTGCTTTAATCTTGAATAACTCAAACAGGTTACTACATCGCAAAGTTAGAAATTCACCTGAGAAATGAACCCTTTCTTCAGTGACAACATAGCTCCAGGTCATTTTTGAAGACATACTGTTGTCTTCAGAAAGGGAAGCTTAAGTGATAATCTTGAAGAAAATTGCCTTGGTACTACTGAATTTATACCCAGTAACTATATGGGAAAGGAATTATCTATAAATTGAAAAAAAACTATATTATTTTAGAATGTATACTTAGCCCTAGTAGGGGAGTTATTCATAGGATCACAACTCTTTCTTCCCTTTCCCAAGTCAATATACCGATTCAATATTAGGAATATCATTCAGTATTCTAAGTATTCAATATTTTGGACTAAAGCTGTGTAACTAAGTAGTTATCGGGATGAGTACTGCACAGTAGCAAAGAAACTATTTTCCAATAGAAGACAAAATCTTTTTTGTTGACCATTAAAATGATTATTAAAACCTCAATACTTGCTTCCTTAGGATTATATATGATATAAATTTTGCCATGTACTTCCTCAGAAATCGGATAGTTATTAAGTATATATGATACATAAAACTACTGACATCTTGAAGTGCCAGAAACTTTAATTTTTGTTAGTTTTACATAATAAAATTTTGAGGTAATAAAAAATTGTAGAGATCATCAGAAGCCAGTATGACTTAGGTTGTGATATTAACAGCTCTGTTCCCTTTTGAACTTTATTCAGTGGGGAATAACGGTAACAAAGAGGCATATTAGTATATCTTTTTTCCAAGTAGACACTTGCAACTTGTAACAAGCTTTTCTACATGTAATTCACTTTTGTTGTTCGTTTGTTTGTTTGTTTTTTCAG
Seq C2 exon
GTTTCTGCTGAACCTGATGGAGCTACGTATGTTTTTCAAGGATTCATCCAGGGTAAAGATTATGGGCAATTCGGACTTCAAAGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000025958:68
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:
NO
A:
NA
C2:
NO
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:
AGTGTATAAAAGCCAGGAAGCTCG
R:
AATCTTTGAAGTCCGAATTGCCC
Band lengths:
198-1515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]