GgaINT0050312 @ galGal3
Intron Retention
Gene
ENSGALG00000011224 | SLC4A3
Description
NA
Coordinates
chr7:23592870-23593845:-
Coord C1 exon
chr7:23593639-23593845
Coord A exon
chr7:23592960-23593638
Coord C2 exon
chr7:23592870-23592959
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:ENSGALT00000018302:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Rat
(rn6)
No conservation detected
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]