BtaINT0041262 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013472 | COL1A2
Description
Bos taurus collagen, type I, alpha 2 (COL1A2), mRNA. [Source:RefSeq mRNA;Acc:NM_174520]
Coordinates
chr4:11639190-11639433:+
Coord C1 exon
chr4:11639190-11639234
Coord A exon
chr4:11639235-11639334
Coord C2 exon
chr4:11639335-11639433
Length
100 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TTGCTGCCTTTCTTCCCCAGGGC
3' ss Score
12.09
Exon sequences
Seq C1 exon
GGAAACCCCGGAGCCAATGGGCTTCCTGGCGCTAAGGGTGCTGCT
Seq A exon
GTGAGTATACGGCTAAAGCGCGCCGCTGTGGCTGTCAGTGTGTTTAGTGGGCGCTGTCTCTCGTTGTCTCGTGATGGACCTTGCTGCCTTTCTTCCCCAG
Seq C2 exon
GGCCTTCCCGGTGTTGCTGGGGCTCCCGGCCTCCCTGGACCCCGGGGTATTCCTGGCCCTGTTGGCGCTGCTGGTGCTACTGGCGCCAGAGGACTTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013472:ENSBTAT00000033863:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
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:
GAAACCCCGGAGCCAATGG
R:
AAGTCCTCTGGCGCCAGTAG
Band lengths:
140-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]