BtaINT0011039 @ 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
chr25:1803371-1805422:-
Coord C1 exon
chr25:1805149-1805422
Coord A exon
chr25:1803576-1805148
Coord C2 exon
chr25:1803371-1803575
Length
1573 bp
Sequences
Splice sites
5' ss Seq
TGAGTATGT
5' ss Score
4.43
3' ss Seq
CTCCCTGCCTCCCGCCACAGGGG
3' ss Score
9.79
Exon sequences
Seq C1 exon
GTGACCTGGAGGAGTTCCTGATTTTCAGGGCCTCAGTGGAGGGGGGCGGCTTCAACGAGCGGTGCCTGGTGGCAGCGTCCTTCAGAGACACGGGCGAGCGCACGGTCATCACTGCCCTGTTCAACAACCAAGCGTACCACTCCCCAGCCACTGTGCTGGCCGTCGTGGACAACCTCCTGTTCAAGCTGCTGTGTGGCCCCCGGGCCTCCATCACGGTGTCCAACTTCCCCCAGCCCCGGAGCGCCCTACAGGCTGCCAAGGATCAGTTCAATGA
Seq A exon
GTATGTGCCCTGTCCCACCCCCTCAGGACCCCGTCCCCAAGTGCTCAGGACCTGCTCCTAGCACCAGGACTGACCGCCTCCACACCCGAGGCACTGCTGGGCTCCTCCCACGGGGACCCCAACCCCACAGCCTCCCCAGCCTTCCACATAAAACCTTTCCTGGGACAGCTGAGACTTTGGGGAGACCCCAGCCCACACACACTTAGGCCCCACCGGTGACTCCTGTGGATCTGGAGGGTGCTGCACCCTCTTCCCAAATCTGCACCCAGCGCTTGCCGATCTATGTCCTGGGGGTACGGCCTTCAGTGCCCGGCATATGTGTGTGTCGCTGCCCCTCAGTGGCCTCAAGTCTGGGACCATCTCAGGCATCTCTGTCCTTGGCCTTGTCACCTTCATGGTGTAGGACTCTCCTCTTCCCGATTGCAGAGCCCCTAGACCTCTGGGGACTGTCCAGATGAAACCAGAAAAGTCTGTTTATTGCAGAACTGTCACCCCACCTCAGGGCAGTTCATTGATGGGGCTTTCATCGCCACCTCCCACTTTAGACTGCCTCCTGGCCCTTCGGTGTCCTCCTCCCCTCCGCCCCCTCTCGACCCCACTGTGAAAGCAGAGACTGGGTGGCAGTCCTCTGTTCTCGCTGCACCAGGGGTCAGGCTGGGGAGTCGGGCTTAGCATGGTGAAAGTGGATGAGAACAGGAGTTTTTCTTTTGCTGAAACAGCTCTAAGAGATATGACCCACCTGCCATATGGTTCTGTGGTTCACGATGCACAATCGAATGGTTTCTAGTACATTGAGTGATGGAGCCATCACCACAATATAGTTTTATCGAATGTTTTCATTATCTTCAAGGAACCGTGGCTCCGTGGCAGTCACTCCCCGTTCCTCTTCCCTCTACCTCTAAGCAGCCGGGAGTCCACTCTCTGTCCCCGTGGTTTGCCTGTCCTGGACATTTCCCGTAGGTGGAATCAGACACCATGTGGCCTTGAGTGACTGGCTTTCACTCTCGAGTCTCATCTACATGTGCCAGCACTTCATCAGTTCAGAGCATTCCCCACCCCAGCACGGCGTGTTGAAACGTTCAGGGGGTGGGGAGGGGGCAGTTTAAGCTACAGAATGGTGCTGTTGGCCCTGGTCTCTGATAGGTGTTGCTGGCACCTGAAGGTCCTGCCCACTCAAGAATGAGAGTGGGGAGACTGCCACTACCCTGATGCCATGCCCAATGGCGGGTCTGACCTGGGCTGCCACAGAGCGGGGCGGAAGTGTCGGATCCACACCTGAGTGTCTGTGGGGAGTGGGTGCACAGGGAACGGAAGGCCACTGGGAGGGCGGCAGTGCCATCACTGTGGACCGGATGCCCAGAAGGGGAGCTGTTCCTGGGTGGGGTAGGGGGATGCAGTTTTCCTGGTATGGAGCCCCCTGAGGCTCTGGATTCTTCCTTAACCCTCTTTAGTGGCTGAGTCACTGCATCACCCGCTTTGGACAATAGTGAGCCAGCACTGGATGGCCCAGCTGCCAGGACGTGCTGTGCTCTATTCCTGACCTGTCTTGTGCCCTCCCTGCCTCCCGCCACAG
Seq C2 exon
GGGCCGGAAAGGATTCGACATCGCCCTCAACTTGCTGTTCGCCATGGCATTCCTGGCGAGCACATTCTCCATCCTAGCAGTCAGCGAGAGGGCCATCCAAGCCAAGCATGTGCAGTTCGTGAGTGGTGTCCACGTGGCTATTTTCTGGCTCTCGGCTCTGCTGTGGGACCTCCTGTCCTTCCTCATCCCCAGTCTGCTGCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014903:ENSBTAT00000019840:19
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(22.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.0=100)
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:
AACAACCAAGCGTACCACTCC
R:
ACTGGGGATGAGGAAGGACAG
Band lengths:
345-1918
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]