GgaINT0077107 @ galGal4
Intron Retention
Gene
ENSGALG00000011604 | SLC4A4
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 4 [Source:HGNC Symbol;Acc:HGNC:11030]
Coordinates
chr4:49765213-49766081:+
Coord C1 exon
chr4:49765213-49765326
Coord A exon
chr4:49765327-49765919
Coord C2 exon
chr4:49765920-49766081
Length
593 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
CCTTTCCTTGCCCTTTAAAGCCA
3' ss Score
7.81
Exon sequences
Seq C1 exon
GCCAGGAAGCTCATCAGTGACTTTGCCATTATCTTATCCATTTTGATTTTCTGTGGAATAGATGCCCTGGTAGGTGTGGACACACCAAAACTAATTGTGCCAAGTGAATTCAAG
Seq A exon
GTATGTAGTTGTCAACTCATTTTGTGTCTTTCGGGATAGGTTCCCTTTTACACCAAACTGCCCTGTATAAAATTGCTTGCCCTCAAAACAGGAAAGTAGTCAGCTCACTACAGATGAACATTTTACTTCACTGTTATCCTTTTAATGAGCATTGTTTGATTGGCTGATCTCCTAAATCCTACATCCATACTTGGGACACAGGCCTAGCTTCTACCTCCTTTGGGTGTAGTTTCTCATATCCAGGACTCACAAGCTGGTGTTATGTGCTCAGCCACCTTAGAGACATTCCCTTACTCAGGTTCCTGGAGGTGTTTCAGAGAAGCTGCTCAGAGCAGCTGGCACATTACTGGCACATTCCTCACAGCCCCTCTTGTAACCATGCTGCTAATCAGCTTGCAAAAGCTGGCCCCCAATAAGCAGTGCTTAATTTTCAAGAACTTTTTGTTGCTTTTGATGGGGAGAATTAAATTATCACAAACCTTAAGTGTCTCTAGCCATTTGTTGGAAGGAAAAGCCCTGTGCATTTATAGCATAATGACGTCTGTGCTATATTGTGGCTCTAATACATGCTTTCCTTTCCTTGCCCTTTAAAG
Seq C2 exon
CCAACCAGTCCCGAGAGGGGCTGGTTTATCCCACCTTTTGGAGGGAACCCATGGTGGGTGTACCTGGCAGCAGCCATCCCTGCACTGCTGGTGACTATCCTCATCTTCATGGACCAGCAAATCACAGCCGTCATTGTCAACAGGAAGGAACACAAGCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011604:ENSGALT00000018948:17
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(7.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGGAAGCTCATCAGTGAC
R:
TGAGCTTGTGTTCCTTCCTGT
Band lengths:
274-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]