BtaINT0072293 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012380 | HK1
Description
Bos taurus hexokinase 1 (HK1), mRNA. [Source:RefSeq mRNA;Acc:NM_001012668]
Coordinates
chr28:25909890-25911888:+
Coord C1 exon
chr28:25909890-25909985
Coord A exon
chr28:25909986-25911788
Coord C2 exon
chr28:25911789-25911888
Length
1803 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
TTGTCTCTTTCTTTCCAAAGGAA
3' ss Score
10.25
Exon sequences
Seq C1 exon
GGTATCTTAATCACCTGGACCAAAGGTTTTAAGGCAACCGACTGCGTGGGGCATGATGTAGCAACCTTACTGAGGGAGGCGATAAAAAGGAGAGAG
Seq A exon
GTAACTATTAAAAGGATGTTTTTAAAAATCTTTACTGCTTTTTTCAGGTTATGTTTTGATCTTTTGGCTGTACCACATAGCATGTGGAATCTTATTTCCCCAAGCAGGAATTGAACCCTTGGCCCTTGCATTGGAAGCTCGGAGTCTTAACCACTGAACTGCCAGTCTTAACCACTGAAGTGCTCCTTTCTTCAGATTATAAAAACTGTACTTGATTGGGAATTCTCTGGTGACCCAGTGGTTAGGACTCCACAGTTCCACTGCAGGGGGCACAGGTTTGATACCTGGTTGTGGAACTAAGATCCCACCAGCTACTCTGTACGACCAAAAAAAAAAAGGTTGTACTTGTATAGAATTCAGTCGATATAGAGGTATGCGACAAGAATACTAACATTCCCCGCAACCGATGGCAATAAAATATCAGAACAGTTTCATGTTACTAAGGGATAGTTTAAGGAATGTAAAGTCATGGCTCTCCTCTAGCTTGAAAAAGGGAAAAGCAGCTCCTGTCTATGCGGCACAGCCTGGCACTGTCACGGGGCACAGCCACCATCACAGCCCCCCTGCGACAGTGATGGAAGCAGGTGAGAAAGAAGCACTCCATCATCACAGCAGAACTTGGCTCACACTTGGAGATGGCCCTGCCTCCTGACTGCACCCAGTCCAGAGCCAAACCCCACTTCTTGGCACCCTCCCTAAAACCACCAGCACAGGCTCAAATCCCATTCTTGTGCTTTTTAACACATTCTGAGTCACCCCATGGGATGTGTTTGCCTGTGTTGCAGCCAACCAGCCAGGAAGCCCAGCTTTATCCACTGTGGGTGCGTGTCTATGGGTGTGGTCTTTGGCTGGAGGACATTGACAAAACGTAAAGTGAAAAATCAGCTCCTTAGTTAATGAGAGAATCAGTAAGAAGTTAAAGAAAAAAATCCATTCAAGTCTCTCTGGTTCAGAAGAGCAGATAAATACACAGGCAGTTAGGAAGGCTGAAATGAATAGGCACGAAGAGGAGCTGGTTGTTCCTGGAAGAATATGCTAGACAACAGTTAATGTTTCATTGAAAAGTAATCTGATGACTTATTTTGCCCATTTCACAAACTTTTAGTGTTATTCCAGTGTACTTTCCATGTGTATACAAATACACACACATTTTAAAAATGGGAGTCATTCCATATTTACTATATTACAGCTGCTTGGTTTTTTTTTTTTTTTTTTTCCATTTAATATGAAACCAGGAGTCTTTCACATTACTACATAGAGGCCAACCTCACTCGCTTTCTTGGCTGCACAGGATTCCAGGGTTTGCCTGCGTAGGCCTTCCATAGCCCCCTTTGATCTGCATTCCAGTTGTTTCTCCTGGCTCTCCTGAGTCACGGAGAAAATACGCTTGTATGTGCCTTTGTGTACTTGCTTGCCTGGACAGATTCTGAGACGTGGATTTGGTATTTCTGTCACACCCTCTGAAGGCTATCGTTTTTACCTGCTGAGACGGAGAGCTGCGTGGCCATGATCCCTCGGCTTTTCTCCGTCCCACAGCGCCCTCTGGGCTGCCTCTCTGGTGCTCAGTGGCATCTTGGAAATGGGTAGAATGCATCCTTCTGAATTCAGGCTTCAGATGCACCTTTAATAGCAGATGTTTAGTGAAGGAGCATCTCGTTACCTTTCACAGGCTGGTAAGGAAACAGTTTCAGATGACGCACCAGTGGCTTTCTGACTGGCATGCAGCAGAATGAACCTGCAGACCTCAAGCCGGGCAGTGCGTGTCCTTCCCCTAAAGCTAAACTTGTCTCTTTCTTTCCAAAG
Seq C2 exon
GAATTTGACCTGGATGTGGTGGCTGTGGTCAACGACACGGTGGGCACCATGATGACCTGTGCTTATGAGGAGCCCACCTGCGAGGTTGGACTCATCGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012380:ENSBTAT00000016432:13
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:
PF0034916=Hexokinase_1=FE(15.0=100)
A:
NA
C2:
PF0034916=Hexokinase_1=PD(11.2=67.6),PF0372711=Hexokinase_2=PU(3.3=23.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTAATCACCTGGACCAAAGGTT
R:
TACGATGAGTCCAACCTCGCA
Band lengths:
191-1994
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]