GgaINT1012985 @ galGal4
Intron Retention
Gene
ENSGALG00000004490 | FAM73B
Description
family with sequence similarity 73, member B [Source:HGNC Symbol;Acc:HGNC:23621]
Coordinates
chr17:5459895-5460984:+
Coord C1 exon
chr17:5459895-5460135
Coord A exon
chr17:5460136-5460773
Coord C2 exon
chr17:5460774-5460984
Length
638 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TGTATCTTTTGTGTTTAAAGTCT
3' ss Score
5.61
Exon sequences
Seq C1 exon
GGTTGCTGGATGAAGGCTGGCTCCAGGACACTGAGCTCGATGTCAGATGGAAGCTGGATTTCCTTGTGAGTGGCTCGTGCAGCATCCATCCAAAAGTGTCCTTCCCCTTCGTGACTCCTGGAGGTGCTGAGGTCATCCTTTAGCCATGGCATTTAGAAGGACCGAGGGAATGTCCATCATCCAGGCCTTGGCAATGACCGTGGCGGAGATCCCCGTGTTTGTGTACACAACGTTTGGGCAG
Seq A exon
GTACAACAAGAGAAAAGTCTTTTCCAGCTGGTTCCTTGGGCTTTGTCTCTGGAGATTGTCTGCCAAGAAAGAAGAATCTGTGTTAGTTGAGAGGAGGCATGGTGGTGGGAGAACCTGTCAGTTCATTTGGTTCATATGTAGAGGCCAGGGTAGTGGGGATGGATTTGGAGTAGGGCGAGATAAGTGTTTCCACATCACTCTGTGGGACAACACCTGAGTTCCACCTTTCTTCTCTTCAAAGGCACTAAGTGCATATATACATTTAAAGATTATTGGTGTATTTTCCATTTGTAGTAATGCAACGCTTGCTCAGCTACACACCAGGGTTCCAGAGCTGAATTTGGGTGGCTCAGGTCTCATCTCTTATGGGCTGTTTGTGAATTTTACAGCTTGTTTTGGCAATGAGAATTGAGACCAGTTTCCCCAGGCTCCATCACGTTGGTGCTGTGCAGTTTCTCTCCTGTTAAGCGCCAGCTGTGTAGCAGATAGGGAGGAATCCTGTGGGTGGGAGGGGAAACGCCGGTGTACATTTCAGGTATCTTATCTTTACAACTGCTATTAACAAAATACACATATGTTTAAAGGATGGTAGACTTTGGTTTTTCATTGTTGCTTTTCTGTATCTTTTGTGTTTAAAG
Seq C2 exon
TCTGTCTTCTCTCAGCTGCGGCTCTCTGCAGGCCTACGTAAGGTACTGTTTGCTACAGCTCTTGGGACGGTTGCGTTGGCTCTTGCAGCTCATCAGCTGAAGCGTCGTCGTCGCCGAAAGAAGCAGATTGCTCCAGAGAAGTGTGGCTTTAAGCCTGGAGGCGTCACAGTGCCCATCCTGCCAACCAGAAGGGTCTCTTCTGTGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004490:ENSGALT00000007150:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.197
Domain overlap (PFAM):
C1:
PF102654=DUF2217=PU(0.4=6.2)
A:
NA
C2:
PF102654=DUF2217=FE(13.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACACTGAGCTCGATGTCA
R:
CAATCTGCTTCTTTCGGCGAC
Band lengths:
347-985
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]