GgaINT0036000 @ galGal3
Intron Retention
Gene
ENSGALG00000001938 | E1BW83_CHICK
Description
NA
Coordinates
chr8:1192504-1193399:-
Coord C1 exon
chr8:1193249-1193399
Coord A exon
chr8:1192927-1193248
Coord C2 exon
chr8:1192504-1192926
Length
322 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ACTCTGTCTTCATATTTTAGCTT
3' ss Score
9.43
Exon sequences
Seq C1 exon
CTTTTGAAGACTACATGGCTAGAACACTATGCATCAAGCTCAGCTAACCCTGGGGTTTTTGTGTTGTTGGGATGTGGTACTGTTTCCAGCACATGTGGGCAGTTAGCCAGTTACCCTCTTGCTCTTGTCAGAACACGCATGCAAGCTCAAG
Seq A exon
GTGAGTCCCATTGTTCTGAAAATGTTTGTGTTCTCGTAGAAATTATTTGTGACAGCTGTGGCAGGCATATGGGCATGGAAAAAAGAGAAAAAAACTTGATAAATCATGTGTTCATCTGATATGTACGTGAGCAATGCATTTCAGTGGGGTTTAGGCGCATGGATCTCTCTGTAATAGCTGGGGATTAAAGAGATTTGCTGTGAAGATATAAATATGAATCATTGGCCCTAAAAATGATAAGCCAGCTACCCGATTGTTTAATAATTGCTGAAGAATTGTGATATTCATGGAACTGTTGAATAACTCTGTCTTCATATTTTAG
Seq C2 exon
CTTCGGTGGAAGGAGCTCCACAGCATAACATGGTCGGTCTCTTTCAAAGAATTATTGCTACAGAAGGAATCCAAGGACTTTATAGGGGCATAGCCCCTAATTTCATGAAAGTTCTTCCAGCTGTCAGTATCAGTTATGTTGTATATGAAAAAATGAAGCAGAATTTAGGAATAGCATGAGATGAAGGAGAAAGGTGAGATCTTTCTAATTTGGTTGGAATGAATGGAACAAAAGTGATTTCCTCAGTAATCTGTTCATAAAATTAAACTCTGGAGAGATGCTGCAACTCCTGTTTTTATCCTCCAGTGGGAGGAAACTTTCTTAATTTCTAGTTCACCATTTGTAAACAGATACCTATATTGCACTTTAATGTCACAGAACTGAGAGGATAAAAATCTATCTTTGAATCAATTATATGCCTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001938:ENSGALT00000003000:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0015322=Mito_carr=PD(9.7=17.6),PF0015322=Mito_carr=PU(38.3=70.6)
A:
NA
C2:
PF0015322=Mito_carr=PD(60.6=95.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGTTTCCAGCACATGTGGG
R:
TGCAGCATCTCTCCAGAGTTT
Band lengths:
358-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]