GgaINT0044686 @ galGal3
Intron Retention
Gene
ENSGALG00000021039 | E1BRU7_CHICK
Description
NA
Coordinates
chr6:11960506-11961962:+
Coord C1 exon
chr6:11960506-11960625
Coord A exon
chr6:11960626-11961866
Coord C2 exon
chr6:11961867-11961962
Length
1241 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTCTCCCTCTTCTGTTTCAGGGA
3' ss Score
12.91
Exon sequences
Seq C1 exon
CTCTTTGACCATATAGTCCAGTGCATAGCAGACTTCTTGGAGTATATGGGGATTAAAGGTGCCCGCCTACCTCTGGGTTTCACCTTCTCCTTCCCGTGCAGGCAAGCCAGCATCGACAAG
Seq A exon
GTAAGGACTGCAAGAAAGAATGAGTCAAATGGCAGCTGATGTCATTCTGGGAGAGGATGGCTTGTTGGCTGGGAGGCTGCCAGCAAAGATTCTTCTTCTGAATGTTTTCCTCCAGGAAGGACTTGACAAGGTTTTTAGTGAGCAGAACTGATATTGCTTGTTCAGAGCTTGGGAGGGTTGGACCTCTCTGACTTTGATTTGTCAATCTGACACATATGGCTTTATGACAGATCTCACACCTTTATCTTCCCAGAACTGATGTAAGAATAGTAATTACAATTAAAAAAATCAAATTCAGGAAGAAATCATTCTTGGTTATTTTAGTCCATTTTCTAAAGGGGAGAAAAGAGGTTTTTCTGCCTGCTTCTTGTTACATATTTACCATGCACTGGGACATGAGAGACTACTATTTTATTAAATGTTTTTATGTCCTGGTGGTTTCTGTAGTAGTCTCTAAATCTTAAGACTAGTCTAACCTGCCTCAATTGTCAGCTCACAGTTGTCATTATAGCACTAGTAGTTGTCTGTTGGAAGACCACTCGATTTGCTCTCCAAACCAGCAGCGCAGGACTTAGATCTTGGCAAATCACGAAGAAACAATCTCCCGAGCAGTAATGTCAAGCTGAAATAGAGATATTTTTGTTTTGAAGAGCAGTTTTTTCCCCCAGTCGTCTCTTGTCTGTTTGTTTTTCCTGTTTTTGCACAGACAGCGCAGAGCCAGTCACCAAATGGAAGGCTCATTTCTTCACAAAACCTGGAAAACTGCTTCTGTTGAGCCAAGTTGCTGTCCAAAAAGAAAACAAGTAACATTGCCTGGAGTAGCAATGATCATAGCGATTGTTATTCAGTGAATGAGCCTAAAATTAACAATTGATGTTTGTTAATGTTAGCTGTGTGTTTATTTACAGCAAACAGATTTTTTTTGGTAGTGTTTCCCCCACAAACGATGCAATGAATTTATGCACAGAAGGAGGTGAGGTGGGAATTTTTTCCAAAGGTTTTTAATGAGTGTTAGAAGGCACTGAGTTGAAGAATGCCTGTGGAAACCTGAGGTCAATCCTATCTGTATTTGAGTCACAAAGATATGTGGACGTGCACTCTGCACTGGGCACTCACAGTAGCCTGGCCAGGGAAATAACAGTATGTAAAAAAGTAAGAAAGATAGTTCAGGATCAAAGAAAAAAGGATATATGGTCTTCTCTCTATCTTCAGTTTATGGTTTTCTCCCTCTTCTGTTTCAG
Seq C2 exon
GGAACGCTTGTGGGATGGACAAAAGGGTTCAAGGCAACTGATTGTGAAGGGGAAGATGTTGTTGATATGCTGAGGGAGGCCATCAGGAGAAGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021039:ENSGALT00000006717:12
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(18.9=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(15.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTTTGACCATATAGTCCAGTGCA
R:
TTCTTCTCCTGATGGCCTCCC
Band lengths:
214-1455
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]