BtaINT0041691 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012849 | COL4A1
Description
Bos taurus collagen, type IV, alpha 1 (COL4A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166511]
Coordinates
chr12:88926666-88926882:-
Coord C1 exon
chr12:88926829-88926882
Coord A exon
chr12:88926693-88926828
Coord C2 exon
chr12:88926666-88926692
Length
136 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
GCCAACGTTTTCTTTTCTAGGGA
3' ss Score
11.16
Exon sequences
Seq C1 exon
GGTGAGAGAGGGCCTGTGGGGCCTCCCGGTTTGCCTGGATTCGCCGGAAATCCC
Seq A exon
GTGAGTCTTGGGTTGTTTGATGAGGGTGTGATCATTCCTCTCTCCTCATTGAACTCCTTTCCCTTTCCTTCCCCCCACCCGTATCTTAATGTTCTTTGGAGGAAAACAAAACTAACGCCAACGTTTTCTTTTCTAG
Seq C2 exon
GGACCACCAGGGTTACCGGGAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012849:ENSBTAT00000035335:7
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:
PF0139113=Collagen=FE(25.8=100)
A:
NA
C2:
PF0139113=Collagen=FE(12.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]
SPECIAL DATASETS
- Pre-implantation embryo development