DreINT0019531 @ danRer10
Intron Retention
Gene
ENSDARG00000002771 | SLC4A5 (1 of 2)
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr5:27473915-27474379:-
Coord C1 exon
chr5:27474205-27474379
Coord A exon
chr5:27474049-27474204
Coord C2 exon
chr5:27473915-27474048
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
TCTCTCTCTCTCTCTATCAGGGT
3' ss Score
12.25
Exon sequences
Seq C1 exon
GTTCTGTGGCGGCCTTTTTCTTGACATGAAGCGGAAGCTCCCCTGGTACCCGAGTGACTTTTATGAAGGTTTCCACATTCAGTCTATCTCCGCGGTGCTCTTCATCTACCTGGGCTGCATAACCAATGCAATCACCTTTGGGGGCCTTCTAGGGGATGCCACAGACAATTACCAG
Seq A exon
GTACACCTCGCACTTTTATACCTGACACTAAACATGACAGTTTGTTTAATGTTGCATGCCATCGTCTCTTCATGGAGCATTTTACAAGCACACTTGTGTCCTAGCTTCATCTATAGCCCATTTCTTTTTTCTATCCTCTCTCTCTCTCTCTATCAG
Seq C2 exon
GGTGTAATGGAGAGTTTTTTGGGCACCGCTTTAGCAGGAACAGTATTCTGCGTTTTTGGCGGTCAACCCCTCATTATTCTCAGCTCAACAGGGCCCATCCTCATCTTCGAGAAACTGCTTTATGAATTCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002771:ENSDART00000138140:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(11.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(21.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGGTACCCGAGTGACTTT
R:
AAGATGAGGATGGGCCCTGTT
Band lengths:
242-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]