BtaINT0011156 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006921 | ABCA6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:HGNC Symbol;Acc:HGNC:36]
Coordinates
chr19:62078603-62080753:+
Coord C1 exon
chr19:62078603-62078722
Coord A exon
chr19:62078723-62080675
Coord C2 exon
chr19:62080676-62080753
Length
1953 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TTTTTTTTTGGTCTTTGCAGAGA
3' ss Score
10.32
Exon sequences
Seq C1 exon
GTCACGGTCATCGCATTTGGCATCATTGTGCTATTTGGCTCAGGCGTCCCTGTCCTGATACCTTGCATGGCTTTAGCTCCCTCAGCAACCTTGATTGGATTTATAGCTTTTTTGCAAGAG
Seq A exon
GTAAGAAATGTTATCAAATGTGCCGTTAATTTTGAATGTGCAGCCCATTAAAGTGCTTTGCCTAAATCTACGAAAACAGACAGCAGGCTGGTGTTTTCCTGGAGCTGAGGTGGGAAAGGAGTGGGTGTCTCTTTAGGGTGGTGGAAATGTTCCTAAGTTAATTGTGGTGATGCTCTTGCAGCTCTGCGAATTTACTAAAAATCTTTGAATCGCACACTTAAAATGAATGAATTTTATGGCATGAGAATTTAACCACAATAAAGCCATTTTGAAAGCTTTGCCAGGAATTCCCTGGCGGTTGGTAGTTAGGACTCAGGACTTTTGCAGTGGAGGGCCCAGGTTCAATCCCTGGTCAGAGAACTGACATCCCAAAAAGCATACCAGGCAGCCAAAAAATAAAAATAAAAGCTTCTGCACTTTACAAAGTGTAAACATTGTCAAATGTATTTAAAACGAATGCCAGATGGAAACACATTGCCTGATTCCATGGTATTCATTATCCAGTGTGAGCGTATACTCACATACAGTAACACTTACTCATCGAGAAATAGAAGTAAACTGATGCTGAAGCGCCAGTACTTCGGCCACCTGATGTGAAGGTGGTCATTTCCAGCCTTTGGAAATGACCCTGACGCTGGGAAGGATTGAGGGCAGGAGGAGAAGGGGACAACAGAGGATGAGATGGTTGGATGGCATCACCGACTCGATGGACGTGAGTTTGGGTAAACTCCAGGAGTTGGTGATGGACAGGGAGGTCTGGCGTGCTGAAGTCCATGGGGTTGCAAAGAGTCGGACACAACTGAGCGACTGAATACCAGACAGCAACAACTCTGCTGTGCGCTGCCCCGGCAGTTAAGGCGCCACATGAACACCAGACAGTAACAACTGTGCTGTGTGCTGTCCCAGACACAACTGAGCGACTGAACACCAGACAGTAACAACTGTGCTGTGCGCTGCCCCGGCAGTCGAGGCGCCACAGCAAGCAGGGCAGCACTGGTCTTCCTTTCACACTCAGTGGGGACAAAGACAGAGCACCCCAGCCAGTCAGCGCCAGGGCCCCGAGGTTGCCAAGGAGACGGCGAGGGGCAAGGGGAAGGTTCCGAGCCCAGCTGGGTCCCTGGGGAGCCCGAGGACCCTGCTGGGTCCTGAACAGTGGGCGGGGGCGGGCAGGGGAAGCCAAGGCCGGGATGCAGGCGAGGGTGCACAGGGCACTGAGGAGGCAGGGGCACTTCATGCAGAAGAGCTGGACGGCGAGGCGCGCAGAAAGCTCGGCCAGGAGCACACCGTCTTCCAGGAGGTGGTGGCTTAAAGGGAGTCGGAGGGCTCCCCTGACCCCATGTGCTCCCAGGGACCGGGGAAGTCGGCTGCAAAATGTCCTTTCCCTTCACTGGCAGTGCCTGGAATTCCCTACTGCAAACTCATTCCTTCATGCAAAGCGTTTCTCTCCTGAGATGTAAGTCGCCCTGTGAGGCGAAATATACCAACCCACGTGTGTCACACACGGTTGGGAAGGAATGAGTGGTTTCTGAACATGTCGCTGATGAAGAAAGAATCACAGGATGGGACTAATTATTGTGGTGGAAACAGTCGCCCCTGGGACCCAGGACGGCTCCTGGGGCCATTTAGGGCAAAGAAGGTGGAGCCCTAGAATCATTCACACTGTAGACCCCTCTGTCTGTTATGCTTGAGTAGACGGTCAGCAAACATTAAACCAAAATAGCAAGGAAAAATAGAAGAGATGGACAGACTTAGGTCACCTCCTTGGAGAGGCAGGCAGAGCTGGGTAGGGGTCCTCTCTTTTCTCTGTGGGGAATTGCTTGTCACCAGGGCACAAAGGGGGAATCAAACTTAATGAGGGAAATCTCCATATGTAAAATTCCGTGTTAATTAAATGCAAATAAGAACGCTGATGAATTTCCAATGAGCCTTTTTTTTTTTTTTTGGTCTTTGCAG
Seq C2 exon
AGAATCCATCGATACTGGATAAAATATCAAGAGGCAAATTACGACCTGAGTGCAGCTGACTTTCTAGTGTGCCTAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006921:ENSBTAT00000009089:25
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(10.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(6.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCACGGTCATCGCATTTGGC
R:
TATTAGGCACACTAGAAAGTCAGCTG
Band lengths:
198-2151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development