GgaINT0040805 @ galGal3
Intron Retention
Gene
ENSGALG00000004222 | F1NEI1_CHICK
Description
NA
Coordinates
chr6:11998823-11999904:+
Coord C1 exon
chr6:11998823-11998918
Coord A exon
chr6:11998919-11999804
Coord C2 exon
chr6:11999805-11999904
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:ENSGALT00000006719:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
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]