Special

BtaINT0011228 @ bosTau6

Intron Retention

Gene
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62123081-62124972:+
Coord C1 exon
chr19:62123081-62123220
Coord A exon
chr19:62123221-62124852
Coord C2 exon
chr19:62124853-62124972
Length
1632 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
ATTTTTATGCCTATTTTTAGACC
3' ss Score
7.7
Exon sequences
Seq C1 exon
TTTGCATCTGAATGAGACGTGTGATCCAGACAGTGTAACATCGATTGTTAAACACCACGTCCCTGATGCCAAATTAACAGCCCAAAGTGAAGAAAAGCTGGAGTATATTCTGCCTATGGAAAGGACAAACAAATTTCCAG
Seq A exon
GTAACAGAATGCAAGAGACCACAGAATTGTTTGTAATGATGTGTACGATCACTGTGGTGTTTAGAATGATGGCTGACATTCGCTGCTTGCAAAGTACGTAGCACTGTGAATTATTTATGACTTATTGTTTAATATTCCAACAGCACTTATGAGTACACTGAGGCAGGAAAATGATAATTATGTTTCAAGTTACAACATGTGCGGTCAAGAGATACAGGGCGACATCAAGCTACAATGAGAAGCATTAGGGAAATTTGCGTCGGGAATGCATGAGAAGGAGGTCCAGGCAGGGAGAGGTCTGGGCACACCCGGGCGGGGAATCGGATGGGAACCGAGGGAGCACGCAGTGTAGGCAGATGGTGTTATAAGCACCGCGACATAACGTTATAATCTTCACAATTCAACAGTGATCATGATCAGCCTATATGAAAATCAAGAGCTTTGCTGCAAACACGAACGGCTGGAGAGGCTTCGATTTCCCAATACGCTGTTTCATTCCCCAAGCATTCTGAGCTGGATTGCACTAAAAAGTGTAACCCATAAAAATGTGTTTGCTTTATTGCGTTCCAAGAAGTTGCCAACTGTTAATGGAAGGTCTTGGGCCAGTCTGCATGCTTGAATTAATAAGCCCGCAACAACTGTGGCTAATAAGGACGTACAGCACCAGGCAAGCTCGGCCGGCAGAGCCAGACTGGCTAGATTCAAAGCCCAGCTCTGCGGGTACTCTCCCTGTCACCCCAAACAGGTTATATTAGTGTACTCCACCTCAGTTTGACCATTTGTAAAAAGCGGTTCATATTAGTACAAACTTTATAGGGTTTTTATGAAGCTTTAATTCATTTACGTTTATTATAAAAATATTAACTATAAATCAGGCACCTGGAAAGATATCTGACAGGTAGCATCTCTGGTACTTTAGCAAGTTTCAGACACCCTCAGTTTCAGAACGTGCCACCAGGGAAGAAACAGAAAGAAACAATGCTGGCATTTAAAACATGACCCCCTAGTATTTATGACACATGCTCGTTTCAGATGCATTAAAAGTTGATGAAATGTATTCATTTTAGAATCAGTGAAATAATGATCATATTAACTCATACAATGCCTTTGATATGTGTATGGTTTGTGTGCATACGTGTTAAGCTGTGTCCAGGTCTTCTGCAACCCCATGGAGTGTGGCCCAGCAGGCTCCTCTGCCTGTGGGATTTCCCAGGCAAGTATACTGGAGTGGGTTGCAGTTTCCTTCCCCAGGGGATCTTCTGGGCCCAAGGATGGGACCTGTGTCTCCTGCACTGGCAGGTGGCTTCCTTGCCACTGAGCCACCTGGGAAGCCTAACAATTGCATTTTTAAAAAACACATTAAATAAAATAGAATACGTTTTTTCCCAAAGCCCCCCACATGTGTAGTATTCTAGGCATGAAAACAGAAATTTCTAGACTCTTATACCCAAGCAGGTCTGGAAACTAACACACTGTATCGTTTATTTTAGAAGTGAGGGACTGTCGACAGCACAGGTTTGTTTCTGATGAGTGTATTGGTCCTATCACAAGTGTTTTCTACTTTGAAAACTATAGTTATTATCAATCTCGTTACAACTGATATTAATTTAGTATTTTTATGCCTATTTTTAG
Seq C2 exon
ACCTCTACAGGGATCTTGAAAGCTGTTCCAACCAGGGCATTGAGAATTATGGTGTTTCCATGACAACACTGAATGAAGTGTTCTTGAAATTAGAAGGAAAATCAGCTTTTGATGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
TGCATCTGAATGAGACGTGTGA
R:
TGATTCATCAAAAGCTGATTTTCCT
Band lengths:
257-1889
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Pre-implantation embryo development