BtaINT0006100 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr18:60466132-60466851:-
Coord C1 exon
chr18:60466722-60466851
Coord A exon
chr18:60466228-60466721
Coord C2 exon
chr18:60466132-60466227
Length
494 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCCTTTCTCTGATGAACAGGTC
3' ss Score
7.59
Exon sequences
Seq C1 exon
CAGGGATGGCTGACATTCCGGGATGTGGCCATAGACTTCACTCAAGAGGAGTGGGAATGCCTGGACCTCGGTCAGCGGGAATTGTACAGGGACGTGATGATAGAGAACTATAGGAACCTGGCCTGCTTGG
Seq A exon
GTGAGGATGACTTCCTTCCAGAATCGCTTATCTAACCCTCAGGGTTTTGGTTCCTTCATTTCTAGAACGTCTTCTGAAATTTTCTGCTCTGCACATTTGTTTCAGATCTCCGCTTTCTAGGGGAAATGGGTATCTGTGAGTTTAGAAAGAAAGGCTTCATGATGATTAGTTATGCTTGTAACCTTTTCTTCCTTCATGTAATCTGCCTCCTCCTTCTAGGTTAGTGGTAATTGTGGTATTAAATAGTTGTACCTTCTCTTAGTTTCACATTTCCGCTACTTACTTTTGCTTTAGTGGCACTTGACCAGAATCTCAGGACCTGACCTTTTTGTATTAGTTAGCATTATATAGGTACTTTCAATAAAGTGTTTGGGGAAATCATTCTCTAGGCTGTATTAACATTCACCCATGTGTTCTCTTCTCACCTGAATACATATTGGATTAGAAACTGATGAATCTCTGGCATAACAAATATTCCTTTCTCTGATGAACAG
Seq C2 exon
GTCTTGTGGTCTCTAAGCCAGATTTGGTCACCTTTCTGGAGCAAATGAAGGATCTCAGGAATATAAGGAGAATGGAGACAATAGGCATATACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030444:ENSBTAT00000017634:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=93.2)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGCTGACATTCCGGGATG
R:
CTGGGTATATGCCTATTGTCTCCA
Band lengths:
222-716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development