BtaINT0136144 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018227 | SLC4A7
Description
Bos taurus solute carrier family 4, sodium bicarbonate cotransporter, member 7 (SLC4A7), mRNA. [Source:RefSeq mRNA;Acc:NM_001098926]
Coordinates
chr22:1784505-1786016:-
Coord C1 exon
chr22:1785883-1786016
Coord A exon
chr22:1784751-1785882
Coord C2 exon
chr22:1784505-1784750
Length
1132 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTATTTTTCTTCCCAAACAGAGA
3' ss Score
9.43
Exon sequences
Seq C1 exon
AGTGCAATAGAGTCTCTTTTTGGAGCGTCATTAACTGGGATTGCCTACTCGTTGTTTGCTGGGCAACCTCTCACAATATTGGGGAGCACAGGTCCAGTTTTAGTGTTTGAAAAAATTTTATTTAAATTCTGCAG
Seq A exon
GTATGTAATAGCTATCCACTTTTCACATGTGTTTACGTAAGTGTATAGTGTATATATATATATATTATTGTATTAACTTTAAAAGTTCTTTGTGTATTTATTAATAGCTGGAAAAGAGGATCTGATCAGTATATATATATATTTTTTCAATGTTTTGGGGCTACTGTGTGCAAACCCTCCTCTGGCTTCTGCTCTCACGCCAGTCACCTTGAGTATAAAGTCCGTGGATTTGTATTCTGATAAGCATGTCACGTGGGGGACAATAAAAATCTTTTGTGTTAGCAGATTTCAGCCTAGTAAGAAGGTGTTAAATCTGAATTAGGTATTGTACAGTATGCCGGTCTTACTAGGAAGTTTAGGAAGAGGTGCGTCTAGAAGGCTGATGCTGGCTCTGCCAGGCAGCGGGTGGGGGGTGTTCATGCACGGGGTCAGTGCAGGCCGCTGGCCCATGGCCTCAGAATCTGACCCAGCAGTACTGTCCCTTTGGTGAGAGCAATGCAGCTGGATGTTTAACCTGGAACAACTTGGTGCTGTTACATGTTTGATTCATCTAATTCCTCTTGTTCTGGTTCTTTCTTTCCTGAACAAGCTGATTCTGATCTGGCATGATACGCACATAAATAGAGAATGTAGTGGCCTGACCTGTTTTAGACTCACTTATTTGAAACTGAGTTGGAAAATGAGTCATGCTGGTGGTGGCGGAGCTAGTGGTGGTGAAGGTGTGACGGCGGGGCAGGGGTGTGGCCGCTGTGTTCACACTGGGGCCCTGGGTCTGCAGAGAGAGCAGCGCACATCCAGGTGTCCTGGAGGCCGGTGTCTGTCGCTTATGCCTCATAACTGGTTTCTAAAGTGAGCTCTTTGTTTTTAAGTACATATTGCCTGGTAGGTTTTCGCTGTAAAACTTTTGTATAAGTAAAATATAACCGTTAAGTCTAATAACAAGCTAGTCTTGAGTTGAAGCAAAAAAAAGCACATAGAGCTTTCTCTAGTCATTATTTTGTTATTCTGTAATAAGCTGTCTTTAGAAATGTCATGTGTTTGTTCTTACTGCTTATTGTGGAAATTTTAAGTACCAGTACTGTTTGGCATGTATATGTTGATCGTGTCCACATTTATTTTTCTTCCCAAACAG
Seq C2 exon
AGATTACCACCTTTCCTATCTGTCTCTGAGAACCAGTATTGGTCTATGGACTTCTTTCTTGTGCATTGTTTTGGTTGCAACAGATGCAAGCAGCCTGGTGTGTTACATCACTCGGTTCACTGAGGAGGCTTTTGCAGCTCTCATCTGCATCATATTCATCTACGAGGCTTTGGAGAAGCTCTTCCATTTAGGAGAAACATATGCATTTAATATGCACAACAATTTAGAGGAACTGACCAGCTACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018227:ENSBTAT00000065868:14
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(18.2=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(15.9=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:
CTGGGATTGCCTACTCGTTGT
R:
GAGTAGCTGGTCAGTTCCTCT
Band lengths:
346-1478
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]