BtaINT0136161 @ 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
chr22:1807138-1809259:-
Coord C1 exon
chr22:1809144-1809259
Coord A exon
chr22:1807296-1809143
Coord C2 exon
chr22:1807138-1807295
Length
1848 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TATTATTTATTTGTCAATAGGTT
3' ss Score
8.54
Exon sequences
Seq C1 exon
GTATTTTGGCCTCTCCACAGTCTGCACCTGGAAACTTGGACAATAGTAAAAGTGGAGAAATGAAAGGTAATGGAAGTGGAGGAAGCAGAGAAAATAGTACTGTTGACTTCAGCAAG
Seq A exon
GTAATTTCTGTTATGAACTATACATTTTCATAATCATGCTTACTGAGGCAGTTGCTAGCAGTGTGACTGTATTAACAGAGATTATAATAATGTTTAATAACCGGTGCTTGTAAACCTGATGTGATGCTTGTGATGTTAATTTAAGATCAGAAATTGTGAAAAAAGGTAACAGTCTCATAGCACTTGAATAATGTTATATTTTACTAGTGTCAGAAATTCTGACAATATGGGAGTAATACGGTGTTTTCCTCTATACCCACGCATAGATATCACAAACTACAGGCGTTTGTTGTGGAGCTGCCACTACCGGAAAGATAATTCTGGGAGTGATGTTTCAGCAGTAACAATTCAGCCTTTTCTCGGCTGTAATGTGATCCCAGAATTACTGTCCTGTGGTGTCAGTGCTTTCTGGAATGTAACTGGGGAACATCGGTGCTTCCCCATGGGTAGGGGAAGGTAAAGACATGGACTGAAAATAAACTCACCTGTCTCAACTGTGATTTTTAATTTTTATAGGTGAGTGTTTAAATGAAATGTGAAAAAGAGCTTATTTCAAAAGAACAAAGCAAAACCCTGCAAGTTCAAATTACAGTTGAATTTAAAGCATACTTTATGAGTACTACCTCTGAATATCTGATATCCATTGCAATTTTTTTGATGGTGTTGGATGGTATTCACTATAGGATACAAAGTCAGACTTCTAATTAAATGCCATTATTTCAAGTAAGATTCAATTTTTAAGCCTTTATGATGCGAAGTCTATAGATCACGTTTTGTAGAAAAGGCACTTAAATGATGATTTGCGTTATAGCTTACTGAGCTTCATGCTCTGAAATTAAAAGCCTTGCATTTGGGACATTGTACTGTTGTTCTGTTGGAACCTGATCGTGTTTTTATAACTGATGCTCCAGTTATCTCAGATGAGTGTCAGGCTTTCAGCAGCGGAGTTGCTGTGAGCAGGTTGCTGTGGTCTGTATCACAGATCTCCTCTAGACGTGGCGGGTGCTGTTCCTTTGTGTTGGTCCTGTCACAGCTGTGCTTTCTCTCACTTGGTCCATCCCTGTGCACACCCGCTTGCCCCCTGTCGGGCAGGACTCTGCCTCCTGGCACTGTAGTTGTGGCACGCTGGGTGTGGGACTCAAGAGGCCTGCTGTAAGTGCTGGATTTGTGTTCCTAGAAGCCCTGGTAGTGGTTGTTCAGTGACTTGTGTGAAGCTGCATACACACGAAGAAGTTCCTGTACTTCGATATTATGTCCATAACCTTTTCTTTGTAATTATACACAGACAACCTAATTAAATTATACAGCACTACCATATACGTATGCCAATTATGACTACTTTACTTGTAAATGAAAATAAAAACGATTTTTCCCACTTACTGAAAATACTGGGGAATGCCCATAGTTCATTAAAATAAAAAGGATTTATAAAATACATAAAATACCAAGGAACTAATTCATGTCTAAGATTAAACAGTAGATAATGACTAAATGAATATTTTTAGAACTGTGTATAATTTCATGGACCATTGTTAGTTTGTGAACTATACTTTTGTCTTCAATAGTTTTTTAATGAATAGTGCTATATCGGTAATGTAGATCTCTGCAGTAGTGAAGATCATGACAGTAATCCAGCTGGGAGTACTGTTTGGTAGTACTGTTTTGGTTGCCCTTTTATATTCGTCAGCTTCATTCTTTGTACTTGTGAGAATTTTGGCACTTACACATCCTTTAGATCACCAGTTTTGATTAGTGAATAGTAGTCTTGAAGCATCTTTTTCCTGTTTCCTTCTAGACTGATTAGTACCATGTACACTTTATTTTAAATTATTATTTATTTGTCAATAG
Seq C2 exon
GTTGATATGAATTTCATGAGAAAAATTCCTTCAGGAGCTGAGGCGTCCAATGTTCTGGTGGGAGAGGTGGATTTTTTAGAAAGACCTATAATTGCGTTTGTGAGACTGGCTCCCGCTGTTCTTCTCTCAGGGCTAACTGAGGTCCCCGTCCCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018227:ENSBTAT00000065868:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.897 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(14.2=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.4=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:
GTATTTTGGCCTCTCCACAGTCT
R:
GGGACCTCAGTTAGCCCTGA
Band lengths:
262-2110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]