BtaINT0136103 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002348 | SLC4A4
Description
Bos taurus solute carrier family 4, sodium bicarbonate cotransporter, member 4 (SLC4A4), mRNA. [Source:RefSeq mRNA;Acc:NM_174605]
Coordinates
chr6:88533514-88537727:+
Coord C1 exon
chr6:88533514-88533675
Coord A exon
chr6:88533676-88537630
Coord C2 exon
chr6:88537631-88537727
Length
3955 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGG
5' ss Score
6.35
3' ss Seq
GTTGTAAATTTCTTTCACAGTCT
3' ss Score
6.83
Exon sequences
Seq C1 exon
ATCTTGGCACTTGTAGCTGTCAGAAAAGGCATGGACTACCTCTTCTCCCAGCACGACCTCAGCTTCCTTGATGATGTCATTCCAGAAAAGGACAAGAAAAAGAAGGAGGATGAGAAGAAAAAGAAAAAGAAGAAAGGAAGTCTGGACAGTGACAATGATGAT
Seq A exon
GTAAGGGGCTTTCTAAAATTCCGAAGTAAAATTCCAAAGTTGGTTAAACAAATGTGAAAATTGTATTTTTTTAATCCTTCTGTGTGATGAATGTCTGAGTTCCCAGAATGTTTACTGGTCATGCTGTTGGTCACTTTTCACCTTTGTTTGCCCTTTATTTTCTTTCTTTGTTTCTTAAAAATATTTTCTGAAATCTTCTGTAACTGCAAATATGCTACTAATGATATAATGACTTCTAGGCAATCAAGCCCACCATATCTAAAAAAACTTTAATCTCTGATCTCCTAGATTAAAAAAAGGAAGCTTGCTTCATAGCTATAAAGTGTATTGGGTTTATTATTGATAATCCAGGATTTAAATTTGAGATAATAGCTCCTTTCTATATAATTTTAAGCCTGATGAGGACAAATGCTGGTGACCTCCCATCCTGGGATCTCTGTATGTATTTGAGTGGGCTCTCAAACAAGCTTCTCAGCTATTTTATTTATCCTTGCATTAGACTTTGACATAATTTTAAAAAATTTATTGGGGTATAGTTGCTTTACAATGTTGTGTTAGTTTCTGCTGACAGTGAAGTGAATCAGCTGTATGGATACGTATATCTTCTCCCTCTTGGACCTCCCTCCCATCCCATCCATCTAGGTCACCAGAGAGCGCCAAGCTGAATTCCCTACAGCAGGTTCACACTAGCTGTTTGTTGATAGTGTATATATATCAGTCTTACTCTCCCAATTTGTCCCACCCTCCCTTTGCCACACTGTGTCCACATGTTCTCCATCTCTATTCCTGTCCTGTGAGTAGGTTCATCTGTACCATTTTCTAGATTCCACACATATGCATTAATGTATGATATGCTATTTGTTTTTTTCTCTCTGACTTCACTCTGTATACAGACTATAGGTCCATCCGTGTCTCTATAGATGACCCAACTTTGTTCCTTTTTATGGCTTAGTAATATTCCATTTTATATATGTACTACGTCTTCTTTATCCATTCATCTGTCAGTGGGCATTTAGGTTGCTTCCATGTCCTGGCTATTGTAAATAGTGCTGCAGTAATGAACATTGGGGTGCATGTGTCTTTTTGAATCATAGTTTTCTCAGGGTATATTCCCAGTAGTGAGATTGCTGGGTCATATGGACTTAAGCATAATTTGAGATTGCTTTTCTGTAACCCTTCAATAAAATGGAAAGGAAATTGGCATTTGGGGATCTTTTTATATAATTGTAATAGTCAGTGTTGTAATTTAGGTTATCTTCTTGCAATTGTATGACTAAGCTAAGAAATAAAATGATTGTCCACTTTTTAGGAAAACATTTCACAGAAATCTTGGTGTTTCACTAAAGTCTATAATCAGGACTGGGAGAAAATCTGGGATTTGCTTTTCTTTCACACACAAACACACACTCACACGAGTAGCTTATCTCAATAGCTTTCTGAAAGGGCAGCCAAAATGACACCTTCTACATGAAGATTTGTAGATTTGTTTTAGATTTTACCCAATGCAGTATCCCCACTCTAATGGAATCCCCAGTATCCTTCTGACATGAGAGTCTTGTTAGTTTTCCTTGTCTGGTCTGTACTTGATCATTTTGATGGATCGGGCATACCTTGTCCTTAAGTGCCAAAACAGCTCTTTACTTTTGTTCCTGTTCTATGGATGAGGAACTTTAGATTGAGAAATGTTAAGTCATTTTTCTAAGCATACACATATTGGCAAAAACAAAGCTCTCGTCCAGGCCTGTCTGGTTATTTTCGATTGGTCAAGCTGTCTGATACTGTATTCTTTTTGGAGAACTTGGGAAGAGTACAGTGAAGGAAGGCAACAGACGAACTTGGATTTTAGATAAATTGATCCAATAAGAAAAGGCTAAATACATGAGGTGCATTTAGCTAAAGAGAGAAGGAGTCTGAGGGAGCTTCTGTGACTGTCATCATCCATCTTCAATGAGAACAGGTGTATAGATTTTCTGTTTCCAGTGATGACAGAAAAAGGGAGAATATGCTTAAACTGCGGCACAGATTAAGATGCAGTGTTAACAAGAAAGATGCGTTTACACATTGAATAGAAATCAAATTTTGAAATAAATTTCTAGGCTACTCAAGGCAAAGAAAAGATTGCCTGAAATACTGAGATAATTAAAGCAGTATTTCATCTTGAATTTTCAAGACCAGTATCTCAGTTTAGGTACATGGACACCAAACTTAAAATTCATTACACGTTACAAATGTATGAAATAATTTTATGGAATCATCTTCTGTAATGAATTTTAGGGAAAAAATAGTAATAAAATATTTACTTTTAAAAATGTTTTAAATTTAGTGCTCTCTAATGTCAGAGGTCAGATCAAATGAGCTCCTAAGAAGGTCTTCTAATTCTTAGATTTGATTTTCAGCAAATCACATTTTATTTAAGCAGCACTATTCTTTTATTAATAATGTTTATCATTTTCAATCCATATTTCCAACAGATTTCTTGAAGATAATGTGTGATATGTTTCGTTTCCTCTTTCTCCTCTTTCCCCTGCCCCCTTGCCCCCACAAAAACAAACAAACAAGCTTATTATGTATCCTAGACAGTGAATCCAGCCAGAGTATATCTGTGCCATAAGTTCTGAGTGTTGAGCCCATTATTTGGGATTCTCCATTTGAAATGTGGCTTTCCTAATGTTCACTTGGCCATTGTGTGGTTTGGCATCCATGGATATAGGGAGCCACACAAGGGTATGAGAATTCCAACTCTAATATCTGTGAGCAAAAGTAGTGAAAATTATGGCTTGCCTGCCTTTTGAGCCACTCAGTCATTTTTGAACCCACCCATTAGGCTATGTATGATTAAGGGTGAGCTGCCAATCTGTTCATCTATAAATGCTATTATTTGGGGAAACTTTGAAATACTGCACCAAAACCCGTTCTTAACATTTTCATTTTTTTCAATTCCAGTGCAATATTTTAGTCTTTTGAAATATTTTAACTCAATATTTTAATTTAATATTTAAGGCTCATTATCCTCTTTAGATTTATCATAAAGGAATTTTCTATATGTGTAATAGTTTTATGGTAAGATTTGTTTTTTATTTTCTTTCATCCCTAGTTCCCATTTTTCCCCTTTCAACTAAATGTTATCTCCTTGGTTCTTTCAGTGAAGAGATAAATTTCATCTTTTGGGTTCAGGCATAGCCATGGGTTCAGTGAATCCTGAAAAACAGTAAAGTGTTAATCCTATAGAAATCTGTTACAGTTTTGGCTTAAGTGGTCCATTCTTTAAGAAGCTTCATGATTTTTTATTTTGGTGATGATTCTTTTCTCCTTATCTGACCATCATAGGCACCTTCCTTTTGACTTCATCTTCTCACGTTTTGCTAAATTTCGAAATATATTTGGAATAAGCTAATTAAGATGAACCTTTAAGTACAAAATAGTTTTGATAGAGTATTAGAGTAAAGGATGGAGGGTTATTTTCAGGTCTATATGGATGACTCTTTGAGAGTGAATATTAGAAAAAGTATCCTTATGTGTCTTGGAAGGAAAGATAAATCATCATTTTCCTGGGGGTAGTGTTGGAAAGCATAAATGAAACAAAATTTCAAGAACATATAGTTTAGGAAGTCTCCTAAATTTAATATTTCACACTTAACTGTTAGTTTCAAAGACACATACAATTAACCCATAAATATTTGATTGTGAATCCAGCTTATGGAAAACTTTACAATTGTTTTCATTTGTGGTGAGCTCCATTTGTGTGGTTCTAGTTTTAACTGACTTAATTCCCTTAACCTAGAAGAAAGGAAAGTAAGCGTGATGGGAAGATGCCATAGAACTTGAAAAGCCAGCAAACGAGAAGTGATTGTATCTAAGGCTGTTCTCCTTAGTACAGCGTAAATGATAATGTAATAGGTTCAATCCATCCTGCGAGGTCTGCATAAAATAAAACTGTTGTAAATTTCTTTCACAG
Seq C2 exon
TCTGACTGCCCATACTCAGAAAAAGTTCCAAGTATTAAAATTCCAATGGACATCATGGAACAGCAACCTTTCCTAAGTGATAGCAAACCTTCCGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002348:ENSBTAT00000003032:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.263
Domain overlap (PFAM):
C1:
PF103594=Fmp27_WPPW=FE(63.1=100)
A:
NA
C2:
PF103594=Fmp27_WPPW=PD(33.3=84.8)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]