BtaINT0041281 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013472 | COL1A2
Description
Bos taurus collagen, type I, alpha 2 (COL1A2), mRNA. [Source:RefSeq mRNA;Acc:NM_174520]
Coordinates
chr4:11650595-11650803:+
Coord C1 exon
chr4:11650595-11650648
Coord A exon
chr4:11650649-11650749
Coord C2 exon
chr4:11650750-11650803
Length
101 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
CAATCCCTTCTCCCACCTAGGGT
3' ss Score
7.11
Exon sequences
Seq C1 exon
GGTGAAGCTGGTCCCGCTGGCCCTGCTGGCCCTGCTGGTCCTCGTGGTAGCCCT
Seq A exon
GTAAGTAGATCAATTCTGGATCAATTTGGACCCTCATAACTTTTAGACACCGATGAGTCTGAGGTTTGCTAAGATATTTTGCAATCCCTTCTCCCACCTAG
Seq C2 exon
GGTGAACGTGGTGAGGTCGGTCCCGCTGGCCCCAACGGATTTGCTGGTCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013472:ENSBTAT00000033863:35
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:
GTGAAGCTGGTCCCGCTG
R:
GCAGGACCAGCAAATCCGTT
Band lengths:
106-207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]