BtaINT0010872 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006937 | ABCA10
Description
ATP-binding cassette, sub-family A (ABC1), member 10 [Source:HGNC Symbol;Acc:HGNC:30]
Coordinates
chr19:61966576-61967997:+
Coord C1 exon
chr19:61966576-61966761
Coord A exon
chr19:61966762-61967849
Coord C2 exon
chr19:61967850-61967997
Length
1088 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTATTCTTTGTGGTCTCAGATT
3' ss Score
8.06
Exon sequences
Seq C1 exon
ATAGCACTGGCTTTCCTCCTCTGCGTGCTGATAAAGAGGCCCATCCTGACTGGCGTGGTTGGCTCTCTCTTCACTGTGTTTTGGGGCTGTCTGGGCTTCACTGCGTTGTACAGACAGCTCCCGTCGTCACTGGGATGGGCTTTATGTCTGTTTAGCCCTTTTGCCTTCACTGCTGGGGTGGCTCAG
Seq A exon
GTAAGAACACAGCCATCTAGTGACTATTTATTAGAGTTTCAGCATTATTGAGACAGTTTGGTACTTCCTCAAGCTTAATGATCAATCACCCTGAATCTTAAGAAATTATGCTATTGAAAAGTTAAATAAAAAATATTATCGGGACTTCCCTGGCGACCCAGTGGTTAAGACTTCACCTTCCAACGCAGGGGGTGCAGGTTCCATCCCTGGTCGGGGAGCTCGGATCCCACAGGCCTCTCGGCCAAAAAAAGAAAAGCAAAAAGAAAGCATAAAACTTAAGGAATATTGTAATGAGTTCAATAAAGAATTTGAAAATGGCCCACATCCAAAAAAAATCTTTAAAAAAGATCTTATCAGAGTTATCAAACAGATCATTTGTAAACTCTTGGGAAATTTAAATGAGAAAAATAACTGCTCAGGATCTGAGCTGGGCTCAGGGCCAGGCACCAGGAATTAGGCTCAGTTCTGTCACTTCCTGCTGAGTCACCTCGGCCGGGTCACCAGGCTTCTGCAGTTTTTCATTGCTCGTCTGCAAAGTCAGGATGTTGGAATCGAGCTCACAGGGAATTGTGCTGTTATTTACGTATGAGGCTAGAACAATGCGCTGTGAAGCTTAGCTATGGTATTTGTGATCTGTTTTATCTTTACTACCCTTAAAATCAACCTCTTCAAGTCTTCAGTACTTACCTAGTGTTTTAACACATCTGCAACATATGAACACTTGGGATTTTCATACTTCCTTCAAATGGCCTCTCACTTCCCTGCCATCTCTGGGTTTCTCTTCCCAGAATAAATTATTTTTGTTTGCTTTCCCACTTCTCTAAATCCCCTTCCTGAAGATTTCTGATTAATGAATCAATTAAGTTTCGGTTCTTCAATTGTCCTACCTTCTCTTAGAGCATTTCCCACTTGGTGACAATAATTTTATTTGTCAAAAGCAACATTGCTACTCAGAACTTCACGAAGCATTTTTTAAGGAAAAAGAATATTAAAATTAAAATTGTAGTTGCCTATGCAGCATCATTAAAAGACCTTCAGTTTTATCAGTGTGTCTAACTTTGACTGTATTTTATTCTTTGTGGTCTCAG
Seq C2 exon
ATTTCGCATCAAGAGTATCACGTGAGTGGTGTTGTATTCCCTGATCCCTCTGGGGAGTCATACACAATGATAGTGCTCTTCTTCCTTCTGGCATTTGACACTCTGCTCTATTTGACATTAACATTATATTTTGAGCACATTTTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006937:ENSBTAT00000040376:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(15.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.9=84.0)
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:
GCACTGGCTTTCCTCCTCTG
R:
AATGTCAAATAGAGCAGAGTGTCA
Band lengths:
302-1390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development