BtaINT0041280 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013472 | COL1A2
Description
Bos taurus collagen, type I, alpha 2 (COL1A2), mRNA. [Source:RefSeq mRNA;Acc:NM_174520]
Coordinates
chr4:11649824-11650648:+
Coord C1 exon
chr4:11649824-11649877
Coord A exon
chr4:11649878-11650594
Coord C2 exon
chr4:11650595-11650648
Length
717 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
CATTTTGGGTCCCTTTGTAGGGT
3' ss Score
8.77
Exon sequences
Seq C1 exon
GGTGCTCCTGGTGCTATTGGTGCTCCTGGCCCTGCTGGAGCCAATGGGGACCGG
Seq A exon
GTAAGCATGCATTTTCACTGACTTGCAACTCTCTGACTGATAGCAATATCGAAAATTCCCTGCTGCCCTGATCCCATAGGGCCCCAGCAATTCATTTTTATGCCTTTGTATAAAGCCCATCTATTTAAAAACATACCTGTTAGTGTGGGGCAGCAGAGAACAAATGCTACGTGGTTAAAGTTCTCTTCCTTTTCTATACATGTGCCTGGTATCTGAGCTATATCTTAATCCCTATCATTTGTTTGAAAGTCTTTTGGGGTTGCCCATTAACAATATCCTAATGTACTGAGCTTTGCTGAAGCCTTCAATTGTAAAAAAAAAAAAAAAAAAATCAATAAAATACATGTGTTCCTATTTCACATCGAACAGTCCACTTAAAATAGACATTATTTATTGTATTGTGCAAATTGCCACAAGTAGATCAGCCTCGTGTCCATCTAAAAATTAAAATGTCCTCCTTCTGGTATTGCGGACACTGACTTATAATATTTCTACAAGTGTATGACCAATGCCCCTGCAACCTCCAAAATGAATACAACATTAGGCAGAGTAAGAGTCCATTTCACTTCTATCTGTGAGATGGGGATTAGTCGCCTCTTTGGATGCAGTTGTGAACTCTGACGAGAACCCACTGGCTCCCTCTGTCTCCTTTCCTGCCTACCTCTTTGAGCATCTGTGGGAGGCGCACTGATGCACTCATTTTGGGTCCCTTTGTAG
Seq C2 exon
GGTGAAGCTGGTCCCGCTGGCCCTGCTGGCCCTGCTGGTCCTCGTGGTAGCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013472:ENSBTAT00000033863:34
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]