GgaINT0040799 @ galGal3
Intron Retention
Gene
ENSGALG00000004222 | F1NEI1_CHICK
Description
NA
Coordinates
chr6:11993820-11994713:+
Coord C1 exon
chr6:11993820-11994003
Coord A exon
chr6:11994004-11994557
Coord C2 exon
chr6:11994558-11994713
Length
554 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
ACTGCTGCCCTCTCCTGTAGGTT
3' ss Score
12.12
Exon sequences
Seq C1 exon
GCACTGGTACCAATGCCTGTTACATGGAGGAGATGCGGCACATTGACCTGGTGGAAGGGGACGAGGGCAGGATGTGCATAAACACAGAGTGGGGGGCCTTTGGGGATGACGGCTCACTAGAAGACATCAGGACAGAGTTTGATAGAGAGATCGACCGTGGATCCCTAAATCCTGGCAAGCAACT
Seq A exon
GTGAGTGAGGCTGTTACTTATGAACTTTTTGGCTTTGTTTGACACGTGGTATGGTTCTGGCAAAATATTTGCTCTCACCAGCACCAGGAGAGGGTGGTCCAGGCACGATCACATTTTGCCTGCAGTTTGCCATCTAACAGGATGAGTGGTTGTTCCCTGTGCAGGTAGTCTTTGTGCCTCACTTTATCTTTGCTTCAGAATTTCTCCTTTAGCAGCCCTGATACAGACAGGACCTTTCCAGGAGGAAGAATATGATCAGAGTTACCAGAGTCTTGATTAGGGCTATTGATTTTTACTCCGTTAGCTTCAATTCACAGCTTATCAACACAGCCCTTCCTGGAGCCAGACAATTAAAGTTAACTCTTGCTGCTTTTCTGTGCTGCGTTGCACACCCTTTTCCATTCGTGTTGTGAATTCAGCAGTTCAAGAAAACCTGACTTGTCTGTGCCAATTCAAACCACTGGCTGGTGCATGTGGTGCAGGTGCACAGCTGGTCTGTGCCTCTTAGTGTTGCCTGTGAACCCATGGGTGTTTACTGCTGCCCTCTCCTGTAG
Seq C2 exon
GTTTGAGAAGATGGTCAGCGGGATGTACATGGGGGAGCTGGTGAGGCTCATCCTGGTGAAGATGGCCAAGGAGGGACTGCTCTTTGAGGGGAGAATCACCCCTGAGCTTCTCACCAAAGGAAAGTTTGAGACAAAGCATGTTTCTGCCATAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.022 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
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACTGGTACCAATGCCTGTT
R:
ATGGCAGAAACATGCTTTGTCT
Band lengths:
334-888
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]