DreINT0151603 @ danRer10
Intron Retention
Gene
ENSDARG00000073952 | slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:ZFIN;Acc:ZDB-GENE-140106-104]
Coordinates
chr16:42828891-42829325:-
Coord C1 exon
chr16:42829165-42829325
Coord A exon
chr16:42829080-42829164
Coord C2 exon
chr16:42828891-42829079
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
AAATCCCTTTCGGTTCACAGACA
3' ss Score
6.87
Exon sequences
Seq C1 exon
GTGGCTGAAGTTTGAAGAGGATGTAGAGGATGGAGGAGAGCGCTGGAGTAAGCCTTACGTCGCCACACTTTCTTTGCACAGCCTGTTTGAGTTGCGCAGCTGCATTCTCAATGGCACAGTCATGCTGGACATGAGAGCAAACAGCATTGAGGAGATAGCAG
Seq A exon
GTAATGTTTGGCTGATAGATGAACCCATATTCCTTGGCATCAACTAAATTCATGTCTAAAAAAAAAAATCCCTTTCGGTTCACAG
Seq C2 exon
ACATGGTATTAGACAACATGGTGGCATCAGAGCAGCTGGATGAGAGTGTAAGAGAAAAGGTACGAGACGCTGTGCTGAAAAGACACCATCACCAGAACGAGAAGAAGCTCAGCAATCGCATCCCGCTCGTGCGCTCCTTCGCCGACATAGGCAAGAAACATTCAGACCCGCACTTGCTTGAGAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000073952:ENSDART00000112879:5
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=0.241
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(17.2=85.2)
A:
NA
C2:
PF075658=Band_3_cyto=FE(23.1=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:
AGAGCGCTGGAGTAAGCCTTA
R:
ACACTCTCATCCAGCTGCTCT
Band lengths:
174-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]