GgaINT0101745 @ galGal4
Intron Retention
Gene
ENSGALG00000011405 | SLC4A7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:HGNC Symbol;Acc:HGNC:11033]
Coordinates
chr2:39045456-39047066:-
Coord C1 exon
chr2:39046951-39047066
Coord A exon
chr2:39045614-39046950
Coord C2 exon
chr2:39045456-39045613
Length
1337 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTCATTTTCATGTGACTAGGTT
3' ss Score
7.78
Exon sequences
Seq C1 exon
GGCTGTTAGCATCTCCTCAGTCAGCACCTGGAAATTTGGACAATGGGAAGAGTGGAGATGTTAAAGGTACTGGGACAGGTGGAAGCAGAGAAAACAGCACTGTTGATTTTAGTAAG
Seq A exon
GTAAGTCATATTAAATGCCTTTGTTTTTAGCACAAAGAGCTATGTAGCAAAAAATACATTAGCTCTTACTGCGGTCTTAGTTACGTACAAGTGGTGCGTAGTATCAAGATGTGGCACACACTGTATACGTCAAATGTTCTGTAACTCTATGGGACTGAACTTTTAGTTTGGTGGTTGTGAACTTTTTGGTATTCTGGTAACTTAAGTGTAGCTTCTGTACTTTCTTATGTAAAAGGCGATGTTTTCAGGTCTGCTGTAAAGGCATATAAAAACAATTTTATAGATAATGTGGAAGTGCATTCTCCTAGGTGCTTTTATTTGGGAGCAGGCACGTGGCTATTAGAGGGAATTCATTCTTTGTTTGAGTTTGCTATACAAAACTGTTCATCTTAATCACTAGGAGTGTATAATATCACATTCTGAATCAAATCTTTTGTACTACTTTAAATTCATTTCATGCCTCTTTGATAAGTAAAATTTTCTGGGTAAGTTGCATTATGGCCATTACTGTGAAAGTCAGTCTGTAGTGTCATCTGTATTGTGTAACATGAAGAACATTGGTTTGCCACGTTAAATAATTATGCTTAAGCAAAGGGAACTTACACTGTAGTTCTCATCTGATGATAGCAGGTGCCATTTATTGTTGCTCCTCTGTCACAGTTTTTGTGTTTTTGCTTGGCCTGTCCTTCTGTACACCTCCCTTGTCTCCTGTTGAGCAGGAGTCAGTCTCCTGGCCCTGTAGTTGTGGTACACTTGGTGTGGGACTCAAGAGGCCATCTGTAAGTTCTCTAGATAGCAGTGTAATTGGTGCTTGTGCATGTATGTGTGTGGACAAAGAGTTCATGTGCTTTTCTGAAATTATGTGCAGAAGTGAAAGCTTAGATCTTTCAACTGTAATTCTTCATGGATGAAATGTAAACATACAAATTCTTTTTCAACATTACAACTTCCTAATATATTTGAAATGCACAACTGTGAAATAACTAACTGCATTCCAGAAACCATGAGCTCTCCTTAGTTAATTATGCTTAATTTAAGTATGTCCTATCACAATATGTTTGTCATGATAAGTAATCTTAGAACGATGTTTATGCAGTCTGGAGTCTTTTAGAATATAATAGGAAGTAGTAATTGTACCTTATACAAAATAATTTATTGTTAATAACTGGCAGGCTGATACTTGATGCGTATGTCTGTCTTTTCCATATTTTGGGGTATTTATTTTGCTTTTGTATTTTTCTTTGTAGCTTTTATGTCTAGTAAATTCTGATAAGCAAAAATTCTATGTTATAGAGTTTATGTTAACAAATGCACTTGTTTCATTTTCATGTGACTAG
Seq C2 exon
GTTGACATGAACTTCATGAGGAAAATTCCTTCCGGAGCAGAAGCATCAAATGTGTTAGTGGGAGAAGTAGATTTTTTAGAAAGACCTATTATTGCTTTTGTGAGGCTCTCTCCTGCTGTGCTTCTCTCAGGCCTCACAGAGGTTCCGGTACCTACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011405:ENSGALT00000018603:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.785 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(14.2=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.4=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:
TAGCATCTCCTCAGTCAGCACC
R:
GGTACCGGAACCTCTGTGAG
Band lengths:
262-1599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]