BtaINT0041706 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025210 | COL4A2
Description
collagen, type IV, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2203]
Coordinates
chr12:89139338-89140519:+
Coord C1 exon
chr12:89139338-89139444
Coord A exon
chr12:89139445-89140444
Coord C2 exon
chr12:89140445-89140519
Length
1000 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
ATGCTCTGCATTTCTCACAGGGC
3' ss Score
8.79
Exon sequences
Seq C1 exon
GTGAGCGGGGCCAGCCAGGCGTCCCAGGCGCGCCAGGGCTGAAAGGTAGCGACGGCATCCCAGGACCACCCGGGCTCGATGGGTTCCACGGACTCCCAGGCCCTCCC
Seq A exon
GTGAGTACCTCGGGGGGTGCGGGGAGCGGAGAGGGGGCTCAGCCCTCACCCTCGTCAGCCACGTTCTCACACACCTGAGCGTCGGAGGTACTCACCAGCACGACATCCTCCCAGCTCAACCTGTCCTCTTTTGATGAGCAGGAATCATAGTTTTTAAGGAAACAGTGATTAGGGTTGGAGCCAAGCCCAGAGTGAACATTTGAAAGAAAAAGCAGAAATAAACATTCCTCCTGCCATAATGTATCATGAGAGACCCGCCCCCTCTGCCAGCTGAAGATTCCTAGATGGAGGGGGGAACACTTTTTCCAGGATTGCTTGTAAAACACACAACTTCGCTTTTGCAACACACGCACACCCGTGTTGCAAGAGAGTGTGTGTGATAGAGGCAGAGCCCCCAGCCTCGTTTCTGCGGGAAGACGGAGGGCAGACAGCGAGGGGTGGGTGGCCGCGGACACCAGAGTCCTCCTCCCCACTCCGAGCTCATCCCAGCCCGAGGAGCGGAGTGAACTGGACATGGGGGAGCTCTCTGCCTCCCGCTTCCGCTCTCCTGGTCCCACCATCTCTCGTTATCCTAACAAGCTCGCTGCTCTTTCTCATCCAAAGACTTCCTCCCGTTTACCACTGCACTGCCCCTTGGGAATAGGAGACCGGTAACAGGTGCTAAGTCCTAAAGATAAACTAACGTGTTCCTGCCCTGTTTAGCCAGATATCTGCCTAAGTGCTCTCTCAAAGAAATTCCTCCTGAGAATGAAGGTCCAAGCAGAGCTTGGAAAAGAAAAGTACTCAGATTCCCATCCTCTAGAGTCTTGTTCATGGCTGTTGGGACATCTGTCCTTTATTTCTGTGACCTGGCCAGACCGTGACTGGGGTTCTGTTCATCCCTGCTGTCTTCTGCCCCACGTCCATAACGCGGAATTTGGGCATCGAGGCAGCGAGCCTGGCAAGATGGCTGTCTTTGGTGCTTCCATGTGTTGTAAGAAATGCTCTGCATTTCTCACAG
Seq C2 exon
GGCGATGGCATCAAAGGCCCCAGAGGGGACACAGGCCAACCAGGAGCCCCCGGCACGAAGGGCCTTCCAGGGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025210:ENSBTAT00000005916:20
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
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