DreINT0151607 @ danRer10
Intron Retention
Gene
ENSDARG00000073952 | slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:ZFIN;Acc:ZDB-GENE-140106-104]
Coordinates
chr16:42814646-42816648:-
Coord C1 exon
chr16:42816561-42816648
Coord A exon
chr16:42814793-42816560
Coord C2 exon
chr16:42814646-42814792
Length
1768 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTTCTCTACCAACATGACAGATC
3' ss Score
5.34
Exon sequences
Seq C1 exon
GTTTCTCTTCCTGCTGTTAGGGCCTTTCGGTAAAGGAGCCCAGTACCATGAGATTGGCAGATCTATAGCTACGTTGATGACAGATGAG
Seq A exon
GTGAGGTATCTGCCCTGCAAGGTCCATACGGATTGGTTAAAACTCCTATTTAGATGCTTTAACCTTAAGTAAAGTATTCGTTTTTTTATTTAACTTATAAATAAAGTTAAATAAATTAGATTTTCTTAATCTGTGGGCTTGTTAAATAGACCCATTTCACATTCTCAGCAGCAGAAGTCGTCATAGTTGAGTCAACTTAGAGCGCAGTGAATGGGAGAGAACAACAAATACTTTTTTACAATCCTATTTGCTGCGGTTGTGTTATCAATACTTTCAGAAAAAGGGGAAAAATATTGTGAGACTGATAATGGCAGCCAGAGTAGAGAATATTGTCAAATTTGCTGTCCTGCCATAGACTCTGCATTAGAAACAACTTGTATAGGCGGGAATTAATTTTTTGTTATTTTTGACACAAACATGATAGAATACATACATAAATACATATAAATGTTCATGCTCAAAAAAAAAATCTAAATATTAAAAACTTTCAAGGATTTAAGATGATGATGACAGTCCAGTCTCGTGAAAAGGGTCCATCATCATGTAACAATAAAACTTAAAATGTTTACATTTTTATGTTTAAATAGTTTTACACATTTTATATGAAAACAATAATTTTCAATTTTACTGTTGTAAAAACTTTATTACATTTATTTTAAATTTTAGAAGAGTGTTCTGCTGTAGTAACATCCTTATTTCTTTTATACAATCTCTAGTTTTTTTTTTTTGACAGTTTGTTTGTGAAGACACATATGACAGTAATATTTCTCTCATATTGAATTGTAAGAATTACTGTTTTACTAAGCAAATAAATGCAGCCTTAGTAAATGCCATAGTAAAGGTTATTGCACACTGAATCCGAAATTTTCGTCCGTAATTTTCGCCCATTAAAAAATAAATTCAACCTCACAGTGTGTGAATCATTTTGACACACTTTCTCCGAAACATTCATCCATCACAAAAAAAAAAAATCCAAAGCGGGTTCAAATTTTTTTTTTTTTTTTTTTTCCTTCTCGCTTTTCACATCCGAAAAGCGTTTTGACAGTTCAGAACCACTGTACAAGTGAACGGCAAAAAAAAAAAAAAATGCCGTAAATTGAGCTACAGATAACTTTGACAAACACAGTGCATAAAATAAAGACAGAATGTGGCGGACAGTTGAGAACCCCTATGCTGGTTTCTGTGGCTGGCGCACCTCTCCCCTGCTGCTGCTTGGTGTGTGTCCACAGTCTTTGGTGTCTATATATTTGATGTACAGTCTCTGTTCAGGATTTGTTTACATACGTGAATGTGTGAAGTATCCCAAGCAATGTATCCAAACTCCACTGATTTCCTGAAATAAACTTTGGATTGCAGAATAATCGCAGTGCAGCTCTTTGATAAGGAGGAAAATTCTCCTTCCTCTCTATGTAGTCTAGTATTAAATGAACACAATATGTAGCCTATTCCTCGGTCGATTCCTACATTGGAGAAGAAAGAGGAGAACAAAGCATCACAGCTTGAACTGACTGCCAAATGTTTTGTGTTTTTTCATACTGGATTAATTAATGCGGTTAAATAAATCGGACTTAGTGTGCAAGGTTTGTTTATGTGACGAGTTTTTCACATATGAAACTGAAAAAAACGCAAAAAAAAAATTCGGACTTCAATGTGCAAAGACCTTAAGAGAAGACATTAAAGGAATACATTAATTATTAATTTTAGATAGCAAGAGTTTCATTTACTTGTGCATAATCACATTTTCATATCTTCTCTACCAACATGACAG
Seq C2 exon
ATCTTTCATGATGTAGCGTACAAAGCCAAAGATAGGAACGACCTTCTGTCTGGCATTGATGAGTTCTTGGACCAGGTGACCGTTCTGCCTCCAGGAGAATGGGATCCCACGATACGAATTGAGCCTCCAAAGAGTGTCCCCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000073952:ENSDART00000112879:9
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=0.220
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(13.8=74.0)
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:
TCTTCCTGCTGTTAGGGCCTT
R:
CTGAGAGGGGACACTCTTTGGA
Band lengths:
230-1998
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]