BtaINT0072312 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013108 | HK2
Description
hexokinase 2 [Source:HGNC Symbol;Acc:HGNC:4923]
Coordinates
chr11:9726966-9728593:-
Coord C1 exon
chr11:9728410-9728593
Coord A exon
chr11:9727122-9728409
Coord C2 exon
chr11:9726966-9727121
Length
1288 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
GAACATTACTTGCATTGCAGGTT
3' ss Score
6.57
Exon sequences
Seq C1 exon
GCACAGGCAGCAATGCCTGCTACATGGAGGAGATGCGGAATGTTGAGCTGGTGGAAGGGGAAGAGGGGCGGATGTGTGTCAACATGGAGTGGGGGGCCTTCGGGGACAACGGATGCCTCGATGACTTGCGCACAGAGTTTGATGCAGCTGTGGATGAACTTTCCCTCAACCCTGGCAGACAGAG
Seq A exon
GTAGGCGCCCAGCTGCATGTGGGCTCTGGTATGTTTATCTCAGAACTGAACAGTGATGAGACACCCACAACAGCAAATCCCAGGATGCTCATTCTCTTGAGATGTTAACAGAAGAGATTTCTTTGGAAAGGGCTTCTTCTCAGATACATCTGGGAAGTTCTGGGTTAAGTCCTTTTTGCCCTGTTGAACTGTGATGGTCTCGAAGTCCATTTGGGAAAACAAAATCACAACAGTTATGTTGCAAGGAGAACTGGAGTTGGTCACCCAGGTTTTAGAGGGATGAAAAGATCAAAGGGGGTTGCTGAGTAGCACAGAAGTTAGTATACATGTAGGAAGCAGCTCCTACTGTGAGGACTGGACAGGTGAGAGAAAGTGTTAAAACCTAGGTGTGGGACTTGAGGGAAAACAGACAGTTGAACCACTTGTTGCCATCAGGGTGAAGAAGCATTGCTGGGCCAAGGCAGGTAGGACCAGGAAGCGAATAGGAGCAAGCCTTTCTCCATCCATCCAGTGTATAGCATCCTCTATTGTCATCCTGGACAAGGGGGCAGCCCCAGCATCACCAAGCCCTTGTTGTGGTGGGGTCCCATTAGGAAGAGGTTGAATGTAGTGTTTCCTAATTGGATTAACCAGGGACTGTACTTCTGCGGATTATCCTTTGCAAACATTTGTCTATAGTAGAGGCCACAGGCTAAAGTGCCTCCAGGAACCAGCCAGACAACATTAATGAAAGAAAACAGGCTGGAGTAAGACAAGATTAAATGATGATGGAGTCTTGGTTGAAATCGAGAATGCTGATATTTTTAAAGGCACTAGGCAGAGCCGGAAGACCCTCAAACTATTGAGTAGTCACGTCCAGTTCTCTTGGCCAGTTTAGTTCTCAGCTGGCACTAGTTATTTAAACAATAAATGATTAGGTTGAAGGGAAAGCATGCTAAATTCTCAGCAACATCAGGGATTAGGATTCAGTATCCTGCTCTTCTGGAAGTGGGGTGGGGTCTGGTGTGAGTTCCTTCTTGAGAAGTCAGGAATAAGCCTTGGAAGGAAAATGAACCCATTAAATGGAGTCAATTCAGGGAATCCCTTAGGCCTCAGGACACATTTTACTGAATGCTATGAGTCAGTACGTGTGGATGCCAGGAATCCTGCCTAAGTGAGTCAGATAGCATTTCCTGTTCCACTAGCGGGAATCTGTATGCTCTCTACCTTCTAATGTAGTGAAGGCTGGTCTGTATCAGCACATCCTACACTTCTTTTTTAACCTCCATGAACATTACTTGCATTGCAG
Seq C2 exon
GTTTGAGAAAATGATCAGCGGCATGTACCTGGGCGAGATTGTTCGTAACATCCTCATCGATTTCACCAAGCGTGGGCTGCTCTTCCGTGGCCGCATCTCAGAGCGGCTCAAGACAAGGGGAATCTTTGAAACCAAGTTCCTGTCTCAGATTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013108:ENSBTAT00000060994:15
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:
PF0372711=Hexokinase_2=FE(25.4=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(21.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTACATGGAGGAGATGCG
R:
TCAATCTGAGACAGGAACTTGGT
Band lengths:
321-1609
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development