BtaINT0136162 @ 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
chr22:1805369-1807295:-
Coord C1 exon
chr22:1807138-1807295
Coord A exon
chr22:1805457-1807137
Coord C2 exon
chr22:1805369-1805456
Length
1681 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCGTTTTAATGTTCCCTTAGGTT
3' ss Score
10.22
Exon sequences
Seq C1 exon
GTTGATATGAATTTCATGAGAAAAATTCCTTCAGGAGCTGAGGCGTCCAATGTTCTGGTGGGAGAGGTGGATTTTTTAGAAAGACCTATAATTGCGTTTGTGAGACTGGCTCCCGCTGTTCTTCTCTCAGGGCTAACTGAGGTCCCCGTCCCTACAAG
Seq A exon
GTAAGGGAGGGTTAACTGCAGTTAATGTTCTTCCAGAATGTCCCAAATCTAGAGGAACATGTTGCTTTATGTAATGAAAACTCCTTTTTATGGTTAACGGCGTCATTGCCCCAGTGCCTTGACTATTAGAGCATTAAAGATTTTTCTTTCTTTCTGGACTTCCCTGGTGGCTCAGATGTAAAGCGTCTGTCTACAATGAGGGAGACCCAGGTTCAATCCCTGGGTTGGGAAGATCCCCTGGAGAAGGAAATGGCAATCCACTCCAGTACTATTGCCTGGAAAATCCCATGGACAGAGGAGCCTGGTAGGCTACAGTCCATGGGGTCGCAAAGAGTCGGACACGACTGAATGACTTCACTTTTCTTTCTTTTCTTTCTGGAACTTAAAAAAAGCATCCTTTAAAAAATACATTGCATTTATGTTTTTATAATAAAGTTCTGTTCATAGTATGTTCTGTGCAGGCACTGAAGTCAGAGAGGATGGAGTTGAATCCTTGCCCTGCGGCTTTTTGTGGGATGGTCAAGCCAGGCTTCTGCTTTCTAAACTTTCCTTGTAAAATGAGGGTAACAGTACCTCAGGGTTGATTAAATGTAATAATGCCCCTGAATTAGGCAGAATGCTTTGTTCTGACCTGATCCAATCTTCTGTTCAATATACATTAAGAATAATTAGCAAGTTGTGTTATTAATACAAAGTGTGATCAGTTAGCTACTGATTATATGAACTTAATTACAAATGAGAATAATTAAGAATATATTTTTATAGTAATAAATATGAAGAATTAATTGCAGCCTGATTGAAATGTACATGCTAGTTTTTTTAATAAGCTTTCCTGAGTTGCATTAATGGTACAGTACTGAGATAAATGAGAAAAGTAATTCATAGATTCATGTTTAAATTCTTACAAACCAGGAAGATGAATACTCCCAGTTTGGATAAGTATGAATATTAATATTTTACTGTATGCTAATAAGAATATACCTAAGTAGGAAGTTAAGTAATTTTTTTTGGATTTCCCTAATAGCTCAGTTGGTAAAAAAAAAAAAAAAAGCTGCCTGCAATGCAGGAGACCCCTGTTTGATTCCTGGGTCAGGAAGATCCTCTGGAGATGGGATAGGCAGTAAGAGGTTGTTAAATAATAAGAGGCTGTTAAACGATAAGAGTTGCAAATAAAATGCTTTTACTTCCAAAAGGGTTAGTCCCTAATTTTCCCTTATAGTGTCTTTATCCAGATTGTAGTTTGAGGGACCATGAATTTCTTATGAATACTCAACTATTTTCTTAAGCCAAAGTAAGTACTTAAATGGGATTGGTATTCACTTTATTTACTTATTTACTTCTTTTCATCAGTACAGAGCAGAAAAAGTTGTTTACTCAAAATTTGAAAGGATATAAAAGATGGGAAGCACCGTCTTTAATGTAAAACACTGATTCCTTAAGTACTTTTTTACTCTAAGAAAGATGGAAAGTAATAACTTGGCAAAACTTAATTATGAATGCCGTTTTTAGTTTTGTGATTCGTCTGAATAGAGTTGCCAACCTTTTTGCGGCCATTAGGATGTGAGGATGAAAAGGAGGTCTGAGTAATGTTTCTGTGTTTACATTCGTGTGATTTCTTTATGATTCCTAGACTTATGTCTGTTGTTCATGTTCAAATCTCTCCGTTTTAATGTTCCCTTAG
Seq C2 exon
GTTTTTGTTTCTGTTGCTGGGGCCTGCAGGCAAGGCACCACAGTATCACGAAATTGGAAGATCAATAGCCACCCTCATGACGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018227:ENSBTAT00000065868:9
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=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(19.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(10.8=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:
TCATGAGAAAAATTCCTTCAGGAGCT
R:
ATCCGTCATGAGGGTGGCTAT
Band lengths:
230-1911
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]