BtaINT0025639 @ 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
chr19:44698806-44699425:-
Coord C1 exon
chr19:44699215-44699425
Coord A exon
chr19:44699013-44699214
Coord C2 exon
chr19:44698806-44699012
Length
202 bp
Sequences
Splice sites
5' ss Seq
TAGGTACCT
5' ss Score
4.67
3' ss Seq
TGACATGGTCTCCACTACAGATG
3' ss Score
7.85
Exon sequences
Seq C1 exon
GTGTTCTGGAATGACGCATACCTAGCCCAGAGCAAGGAGACGCTGGTCCAGTCCCTGGAGGGCTTTCTTGACTGCAGTCTGGTGCTGCCTCCCTTGGATGCCCCCTCTGAGAAGGCCCTGCTCAGTCTGGTGCCTGTGCAGAAAGAGCTGCTGAGAAGACGCTACCTGCCCAGCCCTGCCAAGCCCGACCCCAGTATCTTCAAGGACCTAG
Seq A exon
GTACCTGCCCTGCCCTGCCCAGCCCAAGTTTTTTTGAGCCCCCAGACCCCCAGCATGGCCCTGTGAGCCCCTGGCTCCCCTCTCCCTGTCCTCATCCCTTCCAGCCTCCCAGATGACCCCATTCCCATCAGGCATCTCCTCCTCGATTCCCCTCTCCCCTCACCTCCCCCTTCAATCCTCTGTGACATGGTCTCCACTACAG
Seq C2 exon
ATGTGAAGAAAGGTCCAGGGGACACCCCAGAAGACCCTCTGCAACGGACAGGCAAGCTCTTCGGGGGACTGGTGCGTGACATCCGGCGCCGCTACCCCCGCTACCTGAGTGACATCACAGATGCCTTGAGCCCCCAGGTCCTGTCTGCCATCATCTTCATCTACTTTGCCGCCCTGACCCCTGCCATCACCTTCGGCGGCCTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001610:ENSBTAT00000002116:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.157
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(14.5=50.7)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(29.1=81.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTTGACTGCAGTCTGGTGC
R:
AGATGATGGCAGACAGGACCT
Band lengths:
303-505
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]