GgaINT0077105 @ galGal3
Intron Retention
Gene
ENSGALG00000011604 | SLC4A4
Description
NA
Coordinates
chr4:51847964-51849482:+
Coord C1 exon
chr4:51847964-51848008
Coord A exon
chr4:51848009-51849293
Coord C2 exon
chr4:51849294-51849482
Length
1285 bp
Sequences
Splice sites
5' ss Seq
TATGTGATG
5' ss Score
-6.71
3' ss Seq
AAATGTTCTTTTTTCTGCAGTAC
3' ss Score
7.11
Exon sequences
Seq C1 exon
GTAGCTTCAGAATTCTTGATTACAATCCCATGTCTGGAGGCATAT
Seq A exon
GTGATGTTATTTTTTCAGTACACCCACATGAACAAGATACTAATAGGTAAGACGTGAGGCCATGAAGCTCTAGTCTTCAACGAGAACCTTAAGTATTTTGAAGACTTGGAATGTAACTTTGCTCAGTGCTCTAGCTGAAATTTTTCTTCCTAAGCAAGAGCATATTTTGTATCATACTGCTTTCCCTAAAGAACATCAGTTTTCTGGTAAATTGCATGTCAGCCTGAATTGGTCTGTGTCTACGTTCATGATAATTTTTCTACAGCTAAAATATTTGGACTATAAGACCCTCTTCTCTCTATTTATTCACTGTGAGGTATTTTGTTGTCGTTTTAATTTAAATATTAATTCTCTATCTTATGTTTCCTGGGACTATCATTTCCTTCCTCTGGGTTTTCATGCAGAAACAGAGCAGTAGAGACAATGTGATTCTAAAACGTCTCAGATATGCAGAATTTTTTAGGTACTTGGATTTATTTTAAACATTCTGTGGTATTAAGCATGTGCATTCTGAATTCCCAGTCTCCCTTAAAACCACGTGCTCTGTGCACAGAGTAGCCTCGTGAGCTCAGTGCTTTTTGCACATTTAAATTCTTGCTCTCTTGTGCATTTATATTTGTTCTGTCCTCATCACTACGCTGACACTATTATGAATTATATAGGTGCAGGGGGAGGTAGAGACCCTTTCTCTGGCTCTGCTTCACCATAAGCATTAGGAAACAGATGATCATCTAACATGCCCTGTGCAGCTCTGGATTCCATGATGAAATATGAAGTGCAAGTAGTGCCTCCCTACCTGAGCAATAGAAGTCATCATTAGTAATGAACTATTCAAATCAGGATGGGCTGGGGAAGCCCCATAGTGGGAGAGCAGCTGAAATATCTCCCTGAAGCTGACAGTGGTTGGGTTTGGTGGTCAGCCTGTCCAGTGAGCGCTCATGGTTGAAAGTATGATGGAAAGGAGCTTCATCCATCCTTTGTATAGAAAGTTGCTATGTGAAGATTTGCAACGGAGTGCTTAGTTTTTTCTTTTGATATATTACCTAAGCCAGAGATCTCTGTCTTCTTTCCAAGGCCTTAGACTGTCTTAAGCTCAGAGGTAACACCATCCTCTCTCTGGGTTAAAATCCATTCTGCTTGCCCACAAGCACAGGGATTTTTAGCTTCTGCACCATGCTTCCTTTTTCTTCCCTACCTTTTTCGTGATGGTCTGTCTCTGTGCCTGCTCTAGCACAGGCAGAGTTTATGTGAGCATGGCTTCATGGAAATGTTCTTTTTTCTGCAG
Seq C2 exon
TACAACACCACCATTGACTGGTCGTCTCTGACAAAGAAGGAGTGCTTGAAATACGGGGGACACCTTGTGGGCAACAACTGTGGATATGTCCCTGACATCACCCTCATGTCTTTCATCCTCTTTTTTGGCACTTATACCTGCTCCATGGCCCTGAAGAAATTCAAGACTAGTCGTTATTTTCCAACCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011604:ENSGALT00000018945:16
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:
PF0095516=HCO3_cotransp=FE(2.7=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.9=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCAGAATTCTTGATTACAATCCC
R:
AGTGGTTGGAAAATAACGACTAGTCT
Band lengths:
231-1516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]