DreINT0151585 @ danRer10
Intron Retention
Gene
ENSDARG00000073952 | slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:ZFIN;Acc:ZDB-GENE-140106-104]
Coordinates
chr16:42813991-42814792:-
Coord C1 exon
chr16:42814646-42814792
Coord A exon
chr16:42814095-42814645
Coord C2 exon
chr16:42813991-42814094
Length
551 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TATTAATTTTGTGTTTGCAGGAG
3' ss Score
8.6
Exon sequences
Seq C1 exon
ATCTTTCATGATGTAGCGTACAAAGCCAAAGATAGGAACGACCTTCTGTCTGGCATTGATGAGTTCTTGGACCAGGTGACCGTTCTGCCTCCAGGAGAATGGGATCCCACGATACGAATTGAGCCTCCAAAGAGTGTCCCCTCTCAG
Seq A exon
GTAATCATTGCTTAGTTGGACTCTGGTAGCTAGAATTTTGCTGGTTTATTCTCTGCTAGGACCAGCCTTTAGGGTTTATTTTTTGGCTTAACACCCAATGTTTCTCAACCTATTTTTATGTGCATTTTGAACATAAAATTATAAAATATAAAATAAATGCTTAATGGAAATTCCAAGATGTGCATACGATTTGAAAATGCACATTTAAAACTTTTATATTCACAACTGAGCAGGATAAACCTTTTATCTGATAAGAAAAGTAGACAAAAAACTTCTAGCATCTCCTACCGCCACTACATGTTTATAACATTTTGTAATTTATTATATAATAAAAAGTCCCACATTCACTTCTTGTACCACAGCAAATACAATTTCTTTTAAATATTTGGCTCCAGTTTATCAGAAAGTGGCAATTTTGTTCTCTTTGACTCACTGGATGTAAACTGTGCATTATTCACAAATGTTTTATGAGATATTTCAGTTTTGCGCATAACTTTAATTCACATCCTTTGATGGAAACATGTTATACCCTATTAATTTTGTGTTTGCAG
Seq C2 exon
GAGAAGAGGAAGATGCCCTCCATGCCGAATGGCTCTACTCCACAATCAGATGTGATCAAACAAGAAGCACACCACGCTGGACCTGAACTGCAGAGGACGGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000073952:ENSDART00000112879:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.722
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.8=74.0)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(1.2=16.7)
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:
TTCATGATGTAGCGTACAAAGCCA
R:
GTCCCGTCCTCTGCAGTTCAG
Band lengths:
246-797
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]