GgaINT0112363 @ galGal3
Intron Retention
Gene
ENSGALG00000012810 | ATP6V0A4
Description
NA
Coordinates
chr1:58404291-58406540:+
Coord C1 exon
chr1:58404291-58404408
Coord A exon
chr1:58404409-58406368
Coord C2 exon
chr1:58406369-58406540
Length
1960 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CTTGTTATTTCCTTTTGCAGAAT
3' ss Score
11.14
Exon sequences
Seq C1 exon
TTCAACTTTGGAGACACATTTGTCCACCAAGCTATCCATACCATTGAATATTGCCTTGGCTGCATTTCCAACACAGCATCCTACCTGCGGCTCTGGGCACTGAGCCTAGCCCATGCAC
Seq A exon
GTGAGTGATGACCTGTTAGCTACCTCACCAGCAATTCCGTGCTGATCTTCTCATGGTGTTTGATTATTGCTGGGATTTTCCACAGTAAATCAAAGTCTTCCTCGTAGATGTTTGCATCTCAGAGTATTTTTCTTCAGATAAATCCAAGTGTTTTATGATGGACTTATCTGTTTTTTGGTGGTGATTCCCAGGAGCTAATGTCAGGGACCTCCTGACTGCATTTCCTAGCCAGGGCCCATTTCCCATGCTATTCCTTAGCTGTACTTTTGGAAGAGTCCCCATGGCATGTGGCTGTGTAGGAGGTGCAACCCAAATGGTTGTTCCTGTCCAAAAAGGTAATTGCAGTATCGGTACTATAGCTGCACATTCCAGGAAGCACTTGCTGTAGCCTTAGGGTATGCAGATGAATGTGAAAAACTTGTAAAAGATATTCTGATTTGGTTCAGAGAAAGAAAAAGAAAAGTTTAACCTCAAGAACTCTTCGATGTTACCATCTTCACTAGGATTTTTCCCAGCAACATGTAGTGGAACCTAATATGTCATGAAAAGTGCACTGCATTTCAATGTCTTTTAGCTTGAATGAAGATAAAAACAAATGCCCTTATACCAGAAGTTCCCTCCGGCTGGAACTTCAACTACCCTAATTTTTGTGAAATGTTTTTTGTTAATATTGCTGTACCACCTCTGGCTAGGAGTTGTGCCTGTCCTGAAGAGCTGGGCACATACAGAAAGGACAAAACAGAATGGAGGGGATACACCATGGATTGATGGAGTGAGCAGTAATTCTTGGCACAGAAATAAACACAGTAGAAGTTGAATGGAAGATGTTAGCTTCCATAAGCATAAGCTTCACATGGAGGACAGGTATCAAAATAAAATAAACCAACTAAGGAGCTAAGATAAGGCAGTCATAAGTGTTGTGTCAGAAATCTGCCTGGAAAATCATTGTGTTCCTTTGCAGCTTTGCAAAGAGGTATTGAAAGGAGTATTTTTCCTGAGGGCATCAGTTACAAAGAGATCCCTCACATACGTTGTCACCTAAAATGACAGGTTATTGAATTTATATGGTCTGAGATATGGATATGGGCTGAAAATGTCATTGTGCAACGACTGATGAAATGGAAAACAAGGCTGGACTGGTGGCTGGAGTATCCGGATGGAGACGAGCTGGGCTAAGTCCTTTCTTTGCCTGTATCAGAAGAGAAAAATATCTTGGTCCTGAATCTATCCTGGGTAACTGGAGTAACTGGGTTAGGAATATGATCTCCTGATGGCCAAGCACATCAGATACGCCAGTAATGTGAATGTTGATTTACAATTGTGGAGGGAAAAAAAAAATCTTTAACAAGCATGCAGGCTACCTAAACATTTAAAACAGCCTTGGCTTGGGTGAGACCAACCAATTGCCCTCCCCCCCCCCCCCCCCAATCATAGCTTCTTTGTGACACTCCAGGAGAAATGGTCTGGGGAACAAATTGGAATTACTTGTCTCTGTGTCCTGTGGGTCTTTGCTGGCATCAATCAGTACAGCTTGAAACCTCATCTGCAAATGTATTGACTATGTCAATCGATCACTTTCACTGGGATTTAGCAGCAAGCAGTTCTATAAGGCTCTGCATAGAGCCCAGCTGCCATGTTAAAGATGTGCAAATTAAATTGATGACTTTATTGTGTCAGGGTAACAATGGGCCTGGTAGTGTGCCTGTGTGGTCTTGGTGACATAAAGCCAAGCCAAAGCAGCACATTTATCTTCCAACACAGTGAAGAGGAGCAACGGAGAATAACCTGCATGCATTTTCCCTCCCCTCTCATCAAGAGGAGGCAAGGTGGCCATGCACAACTATCAACAGGGCTGTCATTTTAAGCCAGCTCACCTAGATAGGAAAAATGGAACACACTGAGTGCTGTGTCTGCCCATGGCTGTTTCTCAGCACTGTTTTCTTGTTATTTCCTTTTGCAG
Seq C2 exon
AATTGTCGGAAGTTCTCTGGACGATGGTGATGCACAATGGGTTAAACAACAGCAGCTGGGTAGGACTCATTGTTGTCTTCATCATCTTTGCTGCTTTTGCAGTGCTGACGGTAGCCATCCTGCTCGTCATGGAGGGTTTGTCAGCCTTTCTGCATGCCTTGCGCCTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012810:ENSGALT00000020900:20
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:
PF0149614=V_ATPase_I=FE(4.9=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(7.1=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:
TTCAACTTTGGAGACACATTTGT
R:
CAAGGCATGCAGAAAGGCT
Band lengths:
279-2239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]