GgaINT1015000 @ galGal4
Intron Retention
Gene
ENSGALG00000028128 | HOXD8
Description
Homeobox protein Hox-D8 [Source:UniProtKB/Swiss-Prot;Acc:P23459]
Coordinates
chr7:15792590-15793982:-
Coord C1 exon
chr7:15793835-15793982
Coord A exon
chr7:15793397-15793834
Coord C2 exon
chr7:15792590-15793396
Length
438 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGA
5' ss Score
5.64
3' ss Seq
CGTGTTTTTGTTTCGAACAGCAG
3' ss Score
7.43
Exon sequences
Seq C1 exon
AGACAGCAGATTTTTACGACACAGCAAGAGGCCGAGCTGGTACAATATCCTGACTGTAAATCGTCCAGTGCTAATATTGGCGAGGAACCAGACCACTTAAATCAGAGCTCGTCTCCCGCTCAAATGTTTCCCTGGATGAGACCGCAAG
Seq A exon
GTTGGACGCAGTCGACGTTCGCTTCCATCTCACGTCTGAGTTCGAAACTTTCTTTTCCTCCTCCCTCTCCTCTCTCCCCGCTCCCTCCGTTCCTCCCCTCTGTGCCTCTCGCCGCGTTCCCGCGCCGCTCTCGCTAACGGAACTGCGGGAGGACCGCGGGGCTGGGGGTGGGGGGGCTGCTGAGCTCCCGGGGCACGGCCGCCGGGGGGGAGCGCGGGGCCGGGGGCGGTCACCGGGCGCTGCCGCGCTCCCGCAAACTGCGGCGCCGGGGAGCCGCGCTTAACGCCGCGGCCGCACCCCCGCGCACCCGCGCTGCCGGGCGCCCCCCGCGCTCTCTTTTCCTCCGCTCCCCCCCCCCGAGGGACGTGCGGAGGCCCCCGGGCGTCGCGGACGCGTTGCTCCGAGCCGCCCCAACCCCCGTGTTTTTGTTTCGAACAG
Seq C2 exon
CAGCGCCCGGGAGGAGGAGAGGGCGGCAGACGTACAGCCGCTTCCAGACGCTGGAGCTGGAGAAGGAGTTTCTCTTTAACCCCTATCTGACCAGGAAGAGACGAATCGAGGTGTCCCACGCCCTAGGACTCACCGAGCGGCAGGTAAAGATCTGGTTTCAGAACAGGAGGATGAAGTGGAAAAAGGAGAACAACAAGGACAAATTCCCCGCTTCCAAGCAGGAGGGAAAGGAAGGGGAGGCCAAAAAGGAAACACATGATCTGGAAGACGACAGAGCCGAAAGCCACACGAATTAAATTAATTTTGCCCTAAAAGCCTTTGTGAAGGGCCATCGGGAACGAGGAGCCCACGGCCGCAGCTCCGGGCCCGTCCCCGCCGTGTGCGTCCCGCGGGGCCGCGTCCCGCCCCACTCCGCGCCGTGTGGGTTCGGGTTTGGGTCCAACTGCATCCGGAGCGATCTCCAGATGTCCGCTCGTCCGCTCCTCCTGGAAATCTGATAGCGAGTTCGCAGCAATACATTTCTAATGAGATATATATATATATATATATAAACAGATACTATTTTTTTTTTGCAATATTGAAAGACGGTGATTGCGACGTACACTTCCTAATGATAAGCGCCAATAAGCGAGACATGTACCAATGCTTTATTAATCAAACAAGTGCACTTGTACTATTTTAATTCTTGTTATTTTCTAATCTCGAATAAATTAAGGAAATTTAATAAATTTTGAAGAGCAAATCTTAGAAATATATCAAACTTTCTACTATCGATATTTGATTTAAATAAATCATAATTATTCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028128:ENSGALT00000038689:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.580 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=57.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATTGGCGAGGAACCAGACCA
R:
CTTTCGGCTCTGTCGTCTTCC
Band lengths:
357-795
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]