BtaINT0044493 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009739 | CSMD1
Description
CUB and Sushi multiple domains 1 [Source:HGNC Symbol;Acc:HGNC:14026]
Coordinates
chr27:1029280-1030224:-
Coord C1 exon
chr27:1030112-1030224
Coord A exon
chr27:1029368-1030111
Coord C2 exon
chr27:1029280-1029367
Length
744 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
TTCCTTTTCACGTGTATCAGGTA
3' ss Score
6.75
Exon sequences
Seq C1 exon
GTGTTTACAAGAAGGAGGAGGCCCACTTACTTCTGAAAGCTTTTCAGATAAAAGGTCCAGTGGATATTTTCGTCAGCAACTTTGAGAATGACAACTGGGGACTGGATGGTTAT
Seq A exon
GTGAGTACTTCCTGGAGGGTTTTCTAATCATCATGTCTGCACAGAGTTGGGGGCACCAACGGGGATTCCTTCCAAGATGACCTGGGTCCTGTCTGCACCGTGAAAACTCAGGGCCCTCACCCTGGCCTTGCAGCAGTGTCACCCCTTCATCATCTGATGGAAGAAAGCCGTCTCTGAGACCAGAAAGAAACCGGCCCGGAGCGACAGGCTGCTCCTGTCAGACACACAAGAGCTTAGGTGCAGACCACACCCCACTGTGACAGCGGAGCCAGACTTTCCCCAAAGCCACAGTAACCACCCTGCACGTGCCAAGAGAGACCCCGGTGCCCCTTCATGGTCTCTTTCACAAGTTAATCCAATGCTTCTGCACTAATTCATCATCAAACTCGAGTGTAAAGGGCCTCACGAGATACACAGGAGACAGCAGCTGTGACACAGTGAGTTTTACATAATGCAGGCTCGGAGGTGATTCATATGTGTGTCCCCCTTACCAAGGATACTAAACATATAAATAAGGTGTAAATTTTACTACTGTTTTGGACATCAAAATTAGACAGAGTTTGGTAGTTGAAAGTTCATATCTGTATTTCTCAATTTTAACTATAAATGGGAATCTCAAAGGAATAACAAATGTTTAAAATAACTAACCATTAATGTTTAAATAGGAGAAATAATATTTATACTATGATACAAGAAGAGGTTATGATTAATTTTTGTTGTTTTCTTCCTTTTCACGTGTATCAG
Seq C2 exon
GTATCATCCGGACTTGAAAGAGGAGGGTTTACTTTTCAAGGTGACATACATGGAAAAGACTTTGGGAAATTCAAGCTGGAAAGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009739:ENSBTAT00000012850:64
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTTACAAGAAGGAGGAGGCC
R:
GCCTTTCCAGCTTGAATTTCCC
Band lengths:
198-942
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]