BtaINT0011094 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018010 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:HGNC:34]
Coordinates
chr3:49677487-49679352:+
Coord C1 exon
chr3:49677487-49677628
Coord A exon
chr3:49677629-49679217
Coord C2 exon
chr3:49679218-49679352
Length
1589 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAT
5' ss Score
5.83
3' ss Seq
GATTTCTTTCTCCTCCCTAGGTG
3' ss Score
12.1
Exon sequences
Seq C1 exon
TATTTTGACCAATATTTCTGACGTCCATCAAAGTATGGGCTACTGTCCTCAGTTTGATGCAATCGATGACCTGCTTACTGGGCGAGAACATCTTTACCTTTATGCCCGGCTTCGAGGTGTACCAGCAGAGGAAATTGAGAGG
Seq A exon
GTAAATTAGCTTGCTTTGTTGTGTCCAGTTAATAGTTTGGTAAACCATGAACCTGCTTCATGAGAATGCATTTATTTAGATATGGGAAAACTAGAGCATGCTATCCGTTAATTCATTCAACAAATGCTCAACTGAGTGTCTGCTGTGTGCCAAGTACTCTTCTGGAAAACAAGGGCATAGCAGTCAACAAAGCAGATGAAAAAAAATTCCCACCGTCCTATCTAACAAAATGATATATGCATTTACCCTTTGATCCAGCCATCCCACTGCTGGGCATTTACCCTGAAGACACACATCCCACAGTACACAAAGACGTATTCAAAAATGCATATTCACTACACTTTAGTCATAAAATATCGGAAATAGCTAAATGTTCAGGTATATAGGAAATTGAATAATTTATGCCATAAATACATGCAACAAGGTCTTATGCAGCTATTTAAAAAAAAACAGGATTTCCCTGGTGGTCCAGCAATTAAGACTCTGTGCTTCCACTGCCAGGGACATGGGTTTGATCCCTTGTTGGGGAACTAAGATCCCACATCCCGTGCCTGGTGTGGCCAAAAAGAAAAATCAAAACCAAAAAAATAGCTCTGTGAATGATACCGACTTTTTTTCAAGCAGATACTGTTAAATGAAGAAAGCAAAGTGTAAAAGAGCACAGGTAGAATGCTACTTTTTCATGTAAGAAAGTAGGACAAATAAGAAAGCATAAATATGTCTGCTTACCTTTACAAATAGAGATACAGGAAGGATTAACTGGAAAACAACGAATGTGGTGATCAGCATGAGGGAAATAGGGTGAAAGGGAAATGGGAGGGAATAACACTTCTGTCAGGATATTTTTTTGTATAGTTTAAACTATTGGAATCACTAAACTATTTGGAATCACTAACATTCTACATATTCAAAAAATAAAACTAAATCAGTAAGAATGAGAAAGAGGTAAAAGTGAAAACAAAAAGAAATCCTAACACTGAAAGCAAATTAAAACCAATTAATCCAATTTTATTTCAAATGAATGTAATAATCATACGGAAGGGGAGGAAAAGAACTAATACAAATAGCTGATGACACAATATTTGATTGTGTATCCTCGGTCCTGGGCAGGCAGAGTGGAGAGAAAGAACTACAAACAAACTATGAGCTCTTCTTAGTCGATTTGTTTTTTATAGAGGCATGGGAAAAGCACTCCTGAAACAATTTTACATGTTTTACAGGACTAAGTAAATGAATAAGTGGGTTTATGTCATTTGGAGCCAGAGTTCTTCCTCTTCCACTCCTAACCATAGTCCATCCAGGACACTGGGTAAGAGGCGTTGTCCCGCTCTGGAAAGGCTGAAGACTATTTCTCAGGGAGTTGCATCCAATGGATGTGAAGCAGACCAAACCATAGCGGGATCTAAGGATCTGAGGGTGGAAAGGAGGCGCCTGGCCCTTGAAGGCCATGAGCCACTCCATAAGTCATCACGTTTCAGCCTCACTAGTCTGTCATCCTGGAGGAGTGAGATCTAGGAGCCCAAGACTTTGAATTGGTGGGGTGTTTGCTTGTTTGTTTTTCCCAAATGGGATTTCTTTCTCCTCCCTAG
Seq C2 exon
GTGACAAACTGGAGTATTCAGAGCCTGGGCCTGTCTCTCTATGCAGACCGCCTGGCCGGCACCTACAGTGGAGGAAATAAGCGGAAACTCTCCACAGCCATTGCGCTCATAGGCTGCCCCCCACTGGTGCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018010:ENSBTAT00000023982:44
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:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(30.3=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:
ATTTTGACCAATATTTCTGACGTCCA
R:
GGGGGCAGCCTATGAGCG
Band lengths:
262-1851
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]