Special

BtaINT0011133 @ bosTau6

Intron Retention

Gene
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr19:61876843-61878667:+
Coord C1 exon
chr19:61876843-61876931
Coord A exon
chr19:61876932-61878437
Coord C2 exon
chr19:61878438-61878667
Length
1506 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TTAAATTTTCTTGATTGTAGATG
3' ss Score
7.53
Exon sequences
Seq C1 exon
CTGGCTGTTCCCCATCGTGTGACGCCGTCCAGTTCTGGTCCTCAGGGTTCACAGTTCTGCAGGCCTCGATAGACGCAGCCATCATACAG
Seq A exon
GTAAAGGTGCTGAAGGAAGGCAAGGGTTCATACCATGCCCCACGTCTTCACCGGTGAAGTTCATTTCACTGCTGTCACGTGTACCAAATTACATCACGCAGGTCAGCTCCTTTACAAAAAAAGAGAAGGAAGAAGCCATATTTTCTGATTTAATTTTTTTTGAAACCCACTTTTGTTTCATGGTCTCCAAGCACACTGTTCAGCACTCTGTATGCCTGTGTTATCCTGTCTGTGCTGTCTGTAGGCAATATTTATGAAAGGCCTGTATTTGCAGATTTTTCCCCTTGAATAAGAATAACTTAGTTTAAAGAAGTTACCTTTATTATCTTAATCATAGTGGTCGATCTTATTTTTAACAGATATTTGTCACTCGTCTGCAAAACGTTGTTTCCCCCTTGTGTACTAGCACCAGCCCATTGAGTCTTGACACCTCTGTGAGGCTGGGGCTCTGTCTGCATTTCATTTATGCACTTGACACACAGGAAGATGAAGTGGCTCTCCAAGCCTCAGTCGATCAGTGGCAGAGCTAGTTCAGACTGTGGCTGTTGGGCTCTCGTTCCTGTGTTTTAGTAGTATACTGCCACTCCAGTTGTTGTGTATAAATGTTGTGTTTAGACTCTGAAGACCTGACCCAGTGTTTCTCGTTTTAGTAGAAATGAACCGCAGACCTTGGGAGGGAGCCCTGTCACTGTCGGTTGTTAGACTGCTACACGTGAAATGACTGCAGAAGTAACGCTTACTGGACAGGGCCGCTGTTAGAGCCGCATGAGACGATACACATGTGTCCTGCGGGCTCTCCCAGCATGGCAGGAACGTATCGTAGATACAGTGTTCAGTAACACACAGGCGCAGGCTGATGACTGTGAAATAAGTAGAGGGCATGTTGCCTTGACGGTGCTGAAGTACCTGTTTGTGTTTTGGCCAAAGACCTTGGCTGCCACAGCCCAGGCCTCACCACACGAACAGGTGCAGCAGAGCTCCTTGTAGCCGTTCACGTGAACACGAGGCAGAAGAGTGTCATAGGGCATGCATAGTTCTATTATCCTGTCTCTATGCATGCTGCATATGTATATATATTTGTAAACAATAGAACTTACTACCTAAAAGAACATTTTTTAAAAAGAGAGTTATTCTTTCATGGCACTTGTCATCATTCTTTAACTCCTCAATTTATAAACATGTATTTTATTAAGTTGCATACATAACTGTCACTAAAGATGGTTATTGTGCAGTTTTATTTTCTTTGACAAATTATTTAATAAAAACATGTGTACTTCCCAACTTCAAACTTTAAACTTTCTGACATGCTTCCAGAATGCGTGACAGCAATGCTCTATGCAGTACCGTGATACTGGGGGCGGCCACTTTGTTTCTGGTACATAGTGTTCTGAGGCTTGTGTTTGCAGTAGGTTATGGACTAACTCTGGGGATGTGATTGTCTCATTATTTCAGGGGCTGCTCTCTGAACTAAGTTAACTGAATGTGTTTAAATTTTCTTGATTGTAG
Seq C2 exon
ATGAAGACCAATGTTTCTTTTTGGAAAGAGCTGGAGTCAACTAAAGCTGTTCTTATGGGAGAAACGGCTGTTGTAGAAATAGACACCTTTCCCCGAGGAGTAATTTTAATATACCTAGTTATAGCATTTTCACCTTTTGGATACTTTTTGGCAATTCATATCGTAGCAGAAAAAGAGAAGAAGTTAAAAGAGTTTTTAAAGATAATGGGACTTCATGACACGGCCTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002747:ENSBTAT00000003563:4
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(7.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.6=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCTGTTCCCCATCGTG
R:
AAAAGGCCGTGTCATGAAGTCC
Band lengths:
318-1824
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Pre-implantation embryo development