Special

GgaINT1014837 @ galGal4

Intron Retention

Description
hexokinase-1 [Source:RefSeq peptide;Acc:NP_989432]
Coordinates
chr6:10488774-10489855:+
Coord C1 exon
chr6:10488774-10488869
Coord A exon
chr6:10488870-10489755
Coord C2 exon
chr6:10489756-10489855
Length
886 bp
Sequences
Splice sites
5' ss Seq
GAGGTGATT
5' ss Score
5.41
3' ss Seq
TACGTTTTTCTTTTCCCAAGGAG
3' ss Score
7.58
Exon sequences
Seq C1 exon
GGTATCCTTCTCAACTGGACAAAAGGTTTCAAAGCTACAGACTGTGAGGGTGAAGACGTGGTGTATTTGCTAAGAGAAGGAATTAAAAGAAGAGAG
Seq A exon
GTGATTTTACTTTTCCTTCCTCCTAATTCTCCTTCCCCTGCAGGGCCTACAGAGCTCCTGGTTAGGCTGGCTCCCTCTGGTGGGGGTTAGTGTGCCTTGAGGAAACAAGCAGTGCCTCCTGCCCTGCATGGAGTTTTGGTGGCTTGTGGCTCTGCTGGCCACACGTCCTGGTCACCACATAGGGCAGTCTAGGAGAAATGCAAGAGTTCAGCCACCAAACTGCAACTGCTGCTCAAAATGAGCCATGCTGGGGAATTTCTTTGCTTAGTTTCACCCCCCAACCCCTGGCCCCCCCAGAGGCTTCTGTCTTTGCTAAATTGAACAGAACTTTCAAAGCAGTTTTCAAACCCTGTGGCAATTGCCACTGCATCAGAGCACGGAGAAAGCAGGAGTATTCGATGTAGTGGCTGCAGGAATGCTTCTCAGTGCACCCTAAATGGCAGTTTTTGCTCCCGTAACGCTTGTTTAAAAAGCTTCAAGCAACTTAACTGATGCTTTCTAGCAAGGGAAGAAAATAACCAGAGGACAACATGAAATTTAACAGTTTTATCAACAAGTGCTGCTGGATTTGCTACTGCACTGCTGAAATACAGAATGGCAATAGCTCTCTGCCACGTGCCTGTATACAAGATCTGTACTCAACTATGCATAAGCCAAAGAGAACAGCTAGGAAAGTACTTCCTTCAGTTGCTATAGTCTTTAGTAGGGAGAGCATGCAAGATGCTGTAGCTGCTCACTGGTACGTTAACTTCTGACTTCTGCACATGTGAAATCAGGCCAGAACTTCCAGTTATTTGTTTTGGTAGTGTCCTCTTTGGTGTTGCTATCGGCGTGAGGGGTTTCTCCAAACCCAGAGTTCTCACTGTTACGTTTTTCTTTTCCCAAG
Seq C2 exon
GAGTTTGACTTGGATGTGGTAGCTGTAGTGAACGATACGGTGGGCACGATGATGACTTGTGCTTATGAAGACCCAAACTGTGAAATTGGACTCATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:13
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTTCTCAACTGGACAAAAGGT
R:
CCACAATGAGTCCAATTTCACAGT
Band lengths:
192-1078
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]