BtaINT0011047 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014903 | ABCA3
Description
Bos taurus ATP-binding cassette, sub-family A (ABC1), member 3 (ABCA3), mRNA. [Source:RefSeq mRNA;Acc:NM_001113746]
Coordinates
chr25:1798373-1799162:-
Coord C1 exon
chr25:1798975-1799162
Coord A exon
chr25:1798544-1798974
Coord C2 exon
chr25:1798373-1798543
Length
431 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
CCATGCCCCCTTGGCCTCAGCGG
3' ss Score
5.16
Exon sequences
Seq C1 exon
GTGCGGCAGCGAATCGGCTACTGTCCCCAGTTCGATGCCCTGCTGGACCACATGACAGGCCGGGAGACCCTGGTCATGTTCGCCCGGCTCCGGGGCATCCCCGAGCGCCACATTGGCGCATGCGTGGAGAACACGCTGCGGGGTCTGCTCCTGGAGCCGCACGCCAACAAGCTGGTCAGGATGTACAG
Seq A exon
GTGTGCCTCAGTCCCGGTGACCCCAGACCTTCCCAGGGTGGGGTTGGGGTATCCCTTACCATAGAGCAGGGGGCACACGGGTCAGGGACTCCCACCCGTTGTTCCATGACCCACAGGGATATGGCAGCAAGGCCCAGGCAGTGCTAGATGAGAAAGGCTACCCTGCAGGTGCTCCCCACTGGAGGCACGGCCAGGCCCCCAGTCAGGCCCCCTTGGGTGCAGACAGACAGTGGTACCGCTCTCTGGGGGTTGCAGGATGACCCCATGGGCACAGCTCTTGAGGGCCTCCTGCTTTGTGAGGTGGGCCTTCCAGGCACATTCACCTTGTTCTTCCCGGGGGCTCTGCCATCCCTGGGCTCTGTCCTCTGCTGGGACCTGGGACCCCACACTAACTGTCAGCCTCACCTTTCCCCATGCCCCCTTGGCCTCAG
Seq C2 exon
CGGTGGCAACAAGCGCAAGCTCAGCACTGGCATTGCTCTGCTGGGAGAGCCCGCAGTCATCTTCCTGGATGAGCCATCCACTGGCATGGACCCTGTGGCCCGGCGTCTGCTCTGGGACACTGTGGCACGGGCCCGAGAGTCTGGCAAGGCCATCGTCATCACCTCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014903:ENSBTAT00000019840:26
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:
PF0000522=ABC_tran=FE(42.8=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(18.6=46.6)
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:
CAGCGAATCGGCTACTGTCC
R:
GAGGTGATGACGATGGCCTTG
Band lengths:
347-778
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]