BtaINT0025642 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001610 | BEB3
Description
Bos taurus solute carrier family 4, anion exchanger, member 1 (erythrocyte membrane protein band 3, Diego blood group) (SLC4A1), mRNA. [Source:RefSeq mRNA;Acc:NM_181036]
Coordinates
chr19:44696932-44698394:-
Coord C1 exon
chr19:44698200-44698394
Coord A exon
chr19:44697106-44698199
Coord C2 exon
chr19:44696932-44697105
Length
1094 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
GCCTTGGTTTTCTGCTGCAGATC
3' ss Score
10.74
Exon sequences
Seq C1 exon
TTCTGCCAGACTAACAACCTGGAGTACATTGTGGGCCGTGTGTGGATTGGCTTCTGGCTCATCCTGCTGGTGGTGCTGGTGGTGGCCTTCGAGGGCAGCTTTCTGGTCCGCTTCATCTCCCGCTACACCCAGGAGATTTTCTCCTTCCTCATCTCCCTCATCTTCATCTATGAGACCTTCTACAAGCTGGTCACG
Seq A exon
GTGAGGGCTGCAGGAGTGTTAGAGGCGTGAGCGTCTGTGTGTGTGTGTGTGACTGTGCACAAGCTATGTGACTGTGGGTGTCATTGCACTAGTGCCTATTTGGCATTTATGTGGCCATGTTTTCACGGAATGTGACTGTGACCACATCCATGTTGACACCAGCTGTCTGTGGGCTGGTATTCTCACCATGACTGTGCATGAGAGGGCCCTTCTGCATGCAAAGGCCCATGTGTATAATCACAGACAGTGACTAATGGGCTTCCCTGGTGGCTCAGATGGTCAAGAATTTGCCTGCAATGCAGGAAACCCAGGTTTGATTCCTGGGTTGGGAAGATCCCCTGGAGAAGGGAATGGCCACCCACTCCAGTATTCTTACCTAGAGAATTCCATGGACAGAGGAGCCTGGTGGGTTACAGTCCATAGGGTCACAAAGAGCTGGCCACGACTTAGCACTTTCACGTGTGTGAGACTGAATGTGGGAGCTAGTAGGCATGGCATGGTAGCAGAGGTCCTGGGGGCTCTGGAGCCCCACCCTGCCGCTCCCTCCCCTGCTATCGCTCTTAAGAACCATAGGGCCTGCAGAGCACGTGCCCCGCCTCCTCAGCTCTGTCACCTTGAACTATGCCTACTTCTGGGTCTCCATTTTATATGGAGGAAGGGTGAACACTTTACGTCTACCCCTGATTCTGCTGGTTGATGGGTATTTCAGTTTTCAAGTCTTTGGAGCCCAAGTCTTTTTAGAAACTTCCTTGGCACTTGTTTCCTGCCCTCCAGCCTTCTCATGGTTCCCAGGCCCTGCTTGCATGTACACACACACACACACACACACAGACTCATTTCCTCCATGGTCTGCCCCACCCAAGCCTAGATTGGTCCTCAGTCCTGAAAACCAAGCTGTGGAATCCCATTGCCTCTCTGTTTCCATGACAACTGAGGAATAAGACAGGTAGATGGATGATGGATTGGTGAATGGATGCTGAATAGAGAGATAAATGGTGAATACAGAGATGCATGGGATGGATGATGGATAGATAAATGATGGTTGGAGGATGGATGGATGGGAAGGAACAGGATGCCTTGGTTTTCTGCTGCAG
Seq C2 exon
ATCTTCCAGGATCATCCACTGCAGAAGAACTATGACCACGATGTGCTGACAACACCCAAACCTCAGGCCGCCCTGCCCAACACAGCCCTCCTCTCTCTTGTGCTCATGGCTGGTACCTTCTTCCTCGCCATGATGCTGCGCAAGTTCAAGAACAGCTCCTACTTCCCTGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001610:ENSBTAT00000002116:13
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(32.7=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(11.7=39.7),PF0095516=HCO3_cotransp=PU(15.8=77.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTACATTGTGGGCCGTGTG
R:
CTTGCCAGGGAAGTAGGAGCT
Band lengths:
348-1442
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]