BtaINT0044495 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009739 | CSMD1
Description
CUB and Sushi multiple domains 1 [Source:HGNC Symbol;Acc:HGNC:14026]
Coordinates
chr27:1019178-1019895:-
Coord C1 exon
chr27:1019763-1019895
Coord A exon
chr27:1019662-1019762
Coord C2 exon
chr27:1019178-1019661
Length
101 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
TTCTTGTCTCCCGCCCCTAGGAC
3' ss Score
12.56
Exon sequences
Seq C1 exon
ACCCCGTGAGCTCCGACCAGGACTCCTCGAGTCACTACCAAGGCACCAGCAGCGGCTCTGTGGCGGCTGCCATTCTAGTTCCGTTCTTCGCTCTCATCTTATCAGGGTTTGCATTTTACCTCTACAAACACAG
Seq A exon
GTACCGTAGCCCCGCCGTCGGTTTACAGACGCTGCGTCTCTCCCCAGGGCCTGGCCCTGCGGTCCTGACGGCCTGTCCCCCTTCTTGTCTCCCGCCCCTAG
Seq C2 exon
GACGAGACCCAAGGTCCAGTACAACGGCTACGCGGGCCACGAGAACAGCAACGGGCAGGCCTCCTTTGAGAACCCCATGTACGACACGAACTTAAAGCCCACTGAGGCCAAGGCCGTGCGCTTTGACACGACTCTGAACACGGTGTGCACCGTGGTGTAGCCCGCGGGCGGCCGCCTCATAGCCATACCTCCGACGACGGACAGCAGGGATCACAGGTGCCACAAACCCTCCCCTCCGGCCCCTCCCGGCACGCGGGGGCGCGGGCCACAGACAGGCCCTCATCCCGGAGCGGCCCGCCGCCGCCAGCTGCGGCCCAGGCGCGCGGAGGAGGGCGCGGCCCGGGATGCGCGGCCTTGCCCGGCAGCCCTGCCCGCCTGGTGTGGCCCCGCTGCCTCTCAGTGCAGCCTCCGCAGGACGGCCTCTGGGCCACACATGGTAGCACCGCAGTATGGGTTCATTGTTTTGTTTTTTTTTTTAATCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009739:ENSBTAT00000012850:66
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.302
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:
TCCTCGAGTCACTACCAAGGC
R:
CACCGTGTTCAGAGTCGTGTC
Band lengths:
255-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]