GgaINT0121804 @ galGal3
Intron Retention
Gene
ENSGALG00000022903 | E1C0F9_CHICK
Description
NA
Coordinates
chr1:81312242-81313176:+
Coord C1 exon
chr1:81312242-81312378
Coord A exon
chr1:81312379-81312950
Coord C2 exon
chr1:81312951-81313176
Length
572 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CTGTATCTTTATCTGTACAGGGG
3' ss Score
7.75
Exon sequences
Seq C1 exon
CTCTGTATCCAGATGTCCTGCAGTGCCTGAATGCCCCTGTACTCTCCTCAAGCCAGTGCAGCAGGGCTTACCCTGGTAGAATTACCAGTAACATGATATGTATAGGATACCTGAATGGAGGAAAAGACTCCTGCCAG
Seq A exon
GTAAAACAACTGCCTCTCCTATCTGTACCTTTCCTGTCTTCTCCTAGTAGAGGATGAGATCATGTTAGAGATACTCAGTGGCATGTCTGAAACCATTTTTTAAACTAGAGTATGCTAGCTCTTGCACTTTGGGCTACCGAAAATGGAGACGTGCTGCACCAGAAAATAAACAACAATCGCAGTGGCTATAACCCTGGATGCAAATGTTAGTATTGGATCCAATGAGAATAAAATATCACCATACCAACATCCAGGAAGTCTGGAAAATGAACACACCTGGTAATTGCACTGCATGTTGTGTATGCTTGATTCTGTGGAAAAGTTTTGCAGAATAATGTGCCAGAAAAGGTTTCTGAGCACCTGCCAAGAACGGCACCCATGAAAAATAAGTAACTTACTACTGTCTGTGATGCCTTAGAAGTACGGCATGTTAGCATCAGGTGCAGATTTGTAAGCAGAAATTATCTTTGTAAGAAAAAGTCTCCCTCTAGAATCTCAGTGGGTTCTGGGAATCATGGCTTACTGCTGATGCTGATAACATTTGCTGAGCATCTGTATCTTTATCTGTACAG
Seq C2 exon
GGGGATTCCGGTGGTCCAGTCGTCTGCAATGGTCAGCTTCAGGGTATTGTTTCCTGGGGCTTTGGATGTGCACAAAAAGGTTATCCTGGTGTTTACACTAAGGTTTGCAATTATGTTTCCTGGATTAAAACGACTATGTCTTCCAACTGAGACACTCATTTTACGTGACCTGCTTTTCCTCCTCCTCATTTCCTTCTGCTTTGGAATTGGATGTACACACCTTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022903:ENSGALT00000037033:3
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:
PF0008921=Trypsin=FE(20.8=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.0=82.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCCTGCAGTGCCTGAATG
R:
GGTGTGTACATCCAATTCCAAAGC
Band lengths:
346-918
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]