BtaINT0045634 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001635 | CUTA
Description
Bos taurus cutA divalent cation tolerance homolog (E. coli) (CUTA), mRNA. [Source:RefSeq mRNA;Acc:NM_001075379]
Coordinates
chr23:7534738-7534953:-
Coord C1 exon
chr23:7534894-7534953
Coord A exon
chr23:7534784-7534893
Coord C2 exon
chr23:7534738-7534783
Length
110 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
TCTCTCCCTGACCTTTTCAGCTA
3' ss Score
9.31
Exon sequences
Seq C1 exon
GGCTGTGGTGGAGAAGCGCCTAGCAGCCTGCGTCAACCTTGTCCCTCAGATTACATCCAT
Seq A exon
GTGAGTCAATTAGGGGTTGGAGGGTTAACCTAACTCAAAGGGCTGACTGGTAGTCTTTTACCTTGAGGGAAATCTTTGCTCCCACAACACTCTCTCCCTGACCTTTTCAG
Seq C2 exon
CTATGAGTGGAAAGGAAAGATTGAAGAGGACAGTGAAGTGCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001635:ENSBTAT00000057488:2
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:
PF0309110=CutA1=FE(19.6=100),PF0079315=DAHP_synth_1=FE(26.3=100)
A:
NA
C2:
PF0309110=CutA1=FE(14.7=100),PF0079315=DAHP_synth_1=FE(19.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGTGGTGGAGAAGCG
R:
CATCAGCACTTCACTGTCCTCT
Band lengths:
106-216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]