GgaINT1025700 @ galGal4
Intron Retention
Gene
ENSGALG00000011224 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr7:21505104-21506079:-
Coord C1 exon
chr7:21505873-21506079
Coord A exon
chr7:21505194-21505872
Coord C2 exon
chr7:21505104-21505193
Length
679 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CGAGGGTGTTTGTTCCACAGGCT
3' ss Score
7.95
Exon sequences
Seq C1 exon
GTGTTTGCAGAACATCCTCTGCTGAAGTTTTACCCACCAAACGTGCAGGGCGGCCTGAACGCCAGCATGCTCTCTGCAGATGCCATGTCACTGGGAATCAGGATGCAGCCCAACACTGCTCTCCTCTCCCTCATCCTCATGCTAGGCACCTTCTTCATTGCCTTCTTTATGCGCAAGTTCAAAAACAGCCGCTTCTTAGGAGGAAAG
Seq A exon
GTGAGAAGTTTGTGGGGCCAGATGTTGAGGACAGATTGATGTGCCAAACAAATAATGTTTCTTGCTGCAGCCCTTTGTTCCTTGTTGAAAGTTTGAATGAACTTGACTGCAGCACCATGTCCCCTTCATGCCTTATCCAGCCCTATCTAATCACAACTGCACCCTGGAGTGCTGCTTTGCTCCGTGTGATGCTGGTACCATCACCCAAAGAAACACAGACAATTCCTTAAATGTCATGCAGACGAGATGGTAACTTGGCTGTGGGCTGTGGGTGAGAGCTGGCTGTTAATCACAGTATCTGCACTGTCCTGTTCCAGTGAGCTTTTCTGAAGCTCGCTGTGTGAGAAGCTCACTTCTGAAGCTTTCTCCCTGTGCCTTGGGAAAGCTCCTTTGGCTGGACATATCTGTTAAATTAGAATAAAAGAAGACGAGCTTACAGCTTGTTCCCTTTTGACATTTCTATACATGCAAGGCATCTGTGTAATACCTGGACACCAACAAAGCAGGCCAATTGGGAGCAACTGGCTGATCACATAGGATTGGCTAGAGGACCGTGCCTTATGGGGCAGTGGGATGCTCAGCTCCATGGACCAGCAGTGCTTCCCCCATCTGGTCCTTGGTGTGGTGGGTGTGAGGAGAGAGCGTGTGCTCTTTGCCAGCGAGGGTGTTTGTTCCACAG
Seq C2 exon
GCTCGGCGGATCATTGGAGACTTCGGGATCCCCATCTCCATCCTAGTCATGGTGCTGGTGGATTACACCATCACAGACACGTACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011224:ENSGALT00000018302:17
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=PD(12.6=36.2),PF0095516=HCO3_cotransp=PU(18.6=79.7)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(9.8=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:
CAGAACATCCTCTGCTGAAGT
R:
GTGTACGTGTCTGTGATGGTGT
Band lengths:
286-965
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]