GgaINT0125910 @ galGal3
Intron Retention
Gene
ENSGALG00000000847 | GARNL3
Description
NA
Coordinates
chr17:11161438-11162589:+
Coord C1 exon
chr17:11161438-11161512
Coord A exon
chr17:11161513-11162477
Coord C2 exon
chr17:11162478-11162589
Length
965 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCCCTTATGTTAATTCGTAGCCT
3' ss Score
6.59
Exon sequences
Seq C1 exon
GCACTCAAACTGAAAACTGGTGTGAAAGGGGATGCACCAACTACCTTGGCAACTACAAGCTTTTGTAAAAAGGAG
Seq A exon
GTGAGTGAACCTGTCTGTTTAAGGAGAGTTACTAGAAAATTAAATGCTACTGAATATGGCATTGTATATCAGTTCTATATACTATTTATTTACTTACATCTTTGTTGCTATAGCATCATATTATGTATTGCATAATATTAAAGTGATTTTGCAGCCAGTAGCAAATAAAGGATGAGTCTGGATGAGGGAGCACTTCTCAAGTTAAAGCAAATCTAAATATCATTATGACATGAGGTTATTTGATGAAAAAGACATGTGTTTTCCAGAAGCAATCATCTTAAATTATTTTTACTTCTTTATCAAGTTTAAAATAAAATTCAGTTGTGTTTTGATTTTCTGTAACTGCAAGATTTTTTAACAGGGCATAGGGATTGAAAAATGTAATCTATGCTTTTCTGTGTGCATCTTATACACAGAAGTTCCAGAGGCGCTTGTAGAATTTCAGACTTCAGTTTACTGTTTAATATTGGGGATGGAGGGAGAAGGGGACAGATTTCAGGAGATACATATGAAGAACACATGACAGAAGCAGAGTTTGGAGGAAAGACAGCTGTAACAGTACCATTTCTAAACACAACCTGAACTACAAAATGTAAGCAAACGGTATGCACATGGTGGCGCATACATTCTAAGTCTGTGCCATTTTAAAAAATTAAAAAAAAAAAAAGAATCAAGAATTTCTCGTGTTGCACTGAATATCAGCTACCTGGGTTTTAGTTCTAGTGTTTCAAGAATGTACCTTATTATTATAGTAGTCTCCAAATCCAATTGATAGGGGGAGTATTTCCTCTGCAAGAAGATTAACTAGATTTTGATATTTCAAACTTTTAAAAGTATACTGTTAGGAAATGTATTCTGCCAAATGTATTTACATGTTACTACTTGCCATTGTCCATCATGTTCTGTGTCTGTCTGATTTGTATTTCTTAGTGTACTTATTGTGTATCCCTTATGTTAATTCGTAG
Seq C2 exon
CCTTGGGAGTCCCAGTCTTTCTGCAGTAATTTTCCTCATGAGGTTGTCTGTGCAGATTCTTGGGGCCAGTCCTTGCTGGTTTCTACAGATGCTGGCATCTTGTTAATAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000847:ENSGALT00000038633:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078017=CNH=PU(7.3=57.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACTCAAACTGAAAACTGGTGT
R:
CATCTATTAACAAGATGCCAGCAT
Band lengths:
187-1152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]