BtaINT0001338 @ bosTau6
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MHK9]
Coordinates
chr25:19561397-19561938:+
Coord C1 exon
chr25:19561397-19561522
Coord A exon
chr25:19561523-19561743
Coord C2 exon
chr25:19561744-19561938
Length
221 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
TGTTTTCTGTATTTTTTAAGGTG
3' ss Score
10.18
Exon sequences
Seq C1 exon
GATAGAGTGTCCAAGGAATTATCCGGGGAATCTGAAGATGAAGATGTACAAAATGAAAGAAATAGAATCCTGGACAACCCTCAGGAGTCACTGAATTCTATAGTGCTTATTAAGGAACTCATAAAG
Seq A exon
GTAATATTATTCAATGAACAACTTATGATGGTTTAATTTCTGTTAAAGAGTATGTCATTAATGCCAAGGGCTTACTGTGGTTTTTTGAATCTATGTGTGTTTTCTCAAGAGAATAGAAGAACTCTTGTGAAGCTACCTGAGGTGGTCCATGGGAGTCTAAAGTATTGTTTGTATATGACCTGTAAGTATTCTTTACTATATTGTTTTCTGTATTTTTTAAG
Seq C2 exon
GTGTATTTTTCAAAACCAGTCGTTTTAGCTGTGAGAAATATCTCTGTTGCAATCCAAAAGCAGGAGTGCTTTGGGTTGCTTGGATTAAATGGAGCTGGGAAAACTACTACCTTCGAAATTTTGACTGGAGAGGAGGTTGCTTCCTCTGGGGATGTGTTCGTTGAGCGCCTTAGCATCACCAAAAATATCCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006717:ENSBTAT00000008832:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.262 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(37.2=83.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATTATCCGGGGAATCTGAAGA
R:
TTTTGGTGATGCTAAGGCGCT
Band lengths:
296-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]