DreINT0151460 @ danRer10
Intron Retention
Gene
ENSDARG00000012881 | slc4a1a
Description
solute carrier family 4 (anion exchanger), member 1a (Diego blood group) [Source:ZFIN;Acc:ZDB-GENE-010525-1]
Coordinates
chr3:19916950-19919196:-
Coord C1 exon
chr3:19919027-19919196
Coord A exon
chr3:19917124-19919026
Coord C2 exon
chr3:19916950-19917123
Length
1903 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
3' ss Seq
ATCTATCTGTTTCTTTGTAGGTG
3' ss Score
11.11
Exon sequences
Seq C1 exon
GTGTCTCAATTCTCATGGAGCCCATTCTGAAGATGATTCCTATGACTGCTCTGTTCGGGATCTTCCTCTACATGGGTATCACTTCACTGAGTGGCATCCAGCTTTGGGACCGCATGCTCCTGCTCATTACGCCGAAAAAGCATCATCCGGCTGTTCCATATGTCACCCGT
Seq A exon
GTAAGTTTTATTTATACACAGTTGTCTCCACATGGGGCAGTCCATGAAATAGAAAATATTTATTCAGCGAGTACTCACACAATTATTTAGTGCATAATGCTACTATTACAAAGTACTCCAAATCGAGTTATTCTGTCTGTCAGTAATTACCATTCCTAAAGCCAATGATAGTCCTGAGTTTTCTTCCAGACAATGCATGTCAGAATGTCCCAAATATAAATAATTCCTAACCAAAGTGTTAAGGAGTTGTGTTAGTGGTGTGCTCTTTACATATGCAAGAAAAAAAAAATTGTTTAAACTTTATTTTAAGTCATTGTTGTTACATTGTAAATATTCATTTAAAGGTACAGTAGGTGATCTGCCTAAATGCTAACTGGTTAGCATAATATCTTTAAAACACAGTGTCCCACCCTTGCTGTCCAAAACTATGCTACCTGAAATTGCAGATCATGTCTATTGCCTGTTAAAAAACAAAGTACTTTATAATACTACAATTCTGATTGAAAAACTGTATTATATCTAGCACACTTTCAGCTATGTAGTTAGCAAGCGAAACTTGTCATAATGTTCAATATGTCATGCAAGCAAGGATCACTTGGTTTCACTCTCTCACACTTTGTCCTAAAGCAACTACTGTATAATAGTGCTATTTACTGATGTTTTGTTGTCAAACTAAATAAAAATCTACATTATTGAGGCTGCTAAAGGAACCTTATGATATTGAAAATAGTCACATCAGTCTTTCACTGGAAGATTTCAGTGGCTGAACAGCACTTCTGTGCAGCCATGTGTCATCCTTCCTGGATGTTTTGTACATTTACAGTAATGTATCAATAATATACATTGCTGAAAACTTAATTTGAGCACATTTAAATGTGATTTTCTGAATAGATATTTATTTGAGCCCTCAGATTCGTATGTAGTTCTAAATATTTCCAAACAAACCGTTAATTAACCAAAAACCAAACTGAAATTAATCAGCTTTCAAATTATGTTTAGGACTGAACCTTAAGATTGGTATCGTGTAATTATGTAATATTAGTTCTGTAATATTTGTGTTATAATACACTCACCTGCCACTTTATTAGGTACACCTTACTATTACCGGGTTGGACCCCCTTTTGCCTTCAGAACTGCCTTAATCCTTTGTGGCATAGATCCAACAAGGTGCTGGAAATATTCTTCAGAGATTTTGGTCCATACTGACATGATGGCATCATGCAATTGCTGCAGAGTTAGCAGCTGCTCATCCGTGATCCGTGAATCTTTCATGCAATGTTTTTCAATCTTCTATCGTCCAATTTTGGTGAGGCTGTGCGATTTGTAGCCTCAGTTTCCTGTTCTTGGCTGACAGGAGTGCCACCTGGTGTGGTCTTCTGCTGCTGTAGCCCATCCACCTCAAGGTTGGACTTGTTGTGTGTTCAGAGATGCTCTTTTGCATAGCTCGGTTGTAAAGGTGGTAATTTGACTACTATTGCCTTTCTTACAGCTCCAGTCTGGCTATTCTCCTCTGACCTCTGGCTTCAACAAGGCATTTGCGCTTAGTGGATGTTTTCTCTTTTTCTGACCATTCTCTGTAAAACCTAGAGATGGTTGTGCATGAAAATTCCAGTAGATCAGCAGTTTCTGAAACACTTAGACCAGCCCGTCTGGCACCAACAACCATACCACATTCAAAGTCACTTAAATCACCTTGCACATTCCCCCATTCTGATGCTCAGTTTCAACTGCAGCAGATCGTCTTCCCCATGTCTATATGCCTAAATGCGTTGAGCTGCTGCAATGTGATTGGCTGACTAGAGATTTGCGTTAACAAGTGTACCTAATAAAGTGGCCATTAAGTGAGCAAATAAAAACCTGTCTGTTCCGCTATTGATCAATACATCTATCTGTTTCTTTGTAG
Seq C2 exon
GTGCCAACTATGCGTATGCACTTGTACACTTTGATCCAAGTGATGTGTTTGGCGTTGCTGTGGGTGGTAAAATCGAGTAATTTCTCACTCGCCCTTCCATTCGTTCTGATCCTCACGATCCCTCTGAGAATGTTCATGACCGGTCACGTCTTCACTGTTATGGAAATGAAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012881:ENSDART00000124326:20
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=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(11.4=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(2.2=19.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCTCAATTCTCATGGAGCCC
R:
ATTTCATTTCCATAACAGTGAAGACG
Band lengths:
342-2245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]