GgaINT0125911 @ galGal3
Intron Retention
Gene
ENSGALG00000000847 | GARNL3
Description
NA
Coordinates
chr17:11162478-11163418:+
Coord C1 exon
chr17:11162478-11162589
Coord A exon
chr17:11162590-11163319
Coord C2 exon
chr17:11163320-11163418
Length
730 bp
Sequences
Splice sites
5' ss Seq
ATGGTTAGT
5' ss Score
7.07
3' ss Seq
TGTGTGTGCTTCCTTTTTAGATG
3' ss Score
12.06
Exon sequences
Seq C1 exon
CCTTGGGAGTCCCAGTCTTTCTGCAGTAATTTTCCTCATGAGGTTGTCTGTGCAGATTCTTGGGGCCAGTCCTTGCTGGTTTCTACAGATGCTGGCATCTTGTTAATAGATG
Seq A exon
GTTAGTAAATGATCATGCGTTTTTGTGTTAATTATTTATGTATCTGAACATGGTCTTGAAAATGTATGTTCATAAGCTCTGCTCAGGTATCGGTAAGTCCTCACCTCCATGGATAGTTACCAATCCAAGTAAATTTATTACATTTGTGTAACCTATTTGCAGAATTTTTCTCTGCATCACAATCAAGCTGTATGTGATGGCCCATTTTAATGCAGATTTCTGAATGTTTTGTTATTTCTCAGATGCTGTTATTTGACCATCTGAAAAGACTCAAAGTTAAAACCAAGCTCAAGGACTGTCTAAGTGGTCTGTCTGGATTTCTTAGCTCTTGGTGATACTAGTGAGCATGAAGCCCAAAACTTATGCAGCAATGGAAGCCTGCTTCTTCAGTAGCAATGCTTTTGCTAGTTTGACCCTTATCTTCTGTGTGCCACAAAAGACCATCAGGATTGAGGGGATTAATCTAATTCTCAGTGAATATTTTCAGATTTTCCAAAGGATGGTCTCTTTTCTGCTTCATTTGCATAATCTGATCCATGGCAATGATAAAACTCTCCCATAAGGAAGAATAGGCTATGATGCAACAGTATATTTAGCAGTTTTCTACAGGATGCATTATTTTAGTGAGGAGGAAAAAAAAAAAAAGGCTTTTATTGCAAGAGGAAGTTCAAAACCACTAACTACAAAATTTTAGCAGAATTTTAAAGAAATGTGTGTGCTTCCTTTTTAG
Seq C2 exon
ATGGTCAAACCACTGTTCAAGTATTTGATAAAACTCTGCAAATAAAGCAGATGCATGTGTTGGAAGCTCTGGATTATTTGATTGCCCGAACAGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000847:ENSGALT00000038633:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=PU(7.3=57.9)
A:
NA
C2:
PF0078017=CNH=FE(10.9=100)
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:
GGAGTCCCAGTCTTTCTGCAG
R:
CTTTGTCTGTTCGGGCAATCA
Band lengths:
206-936
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]