GgaINT0039121 @ galGal4
Intron Retention
Gene
ENSGALG00000008951 | FAM73A
Description
family with sequence similarity 73, member A [Source:HGNC Symbol;Acc:HGNC:24741]
Coordinates
chr8:17877781-17879351:-
Coord C1 exon
chr8:17879253-17879351
Coord A exon
chr8:17877959-17879252
Coord C2 exon
chr8:17877781-17877958
Length
1294 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TCACATTCTTTAATTTTCAGATA
3' ss Score
10.06
Exon sequences
Seq C1 exon
ATGTCAGAGGAGGCTGTTATTGAGGCACGCTTTTCTCTGAAGACAGTGGCTCTACGGGCATTTCACCTTCCCGTGTCCTGGTATCACTCTCTCACACAG
Seq A exon
GTAATGCACATGTTATCTGAGTATTGTAACTTGTGACACATTTTTAAAGTTCAATTGTAATATTGTAGTCACTCTTCCGATCTTAATATGAGCTAAATTTGTAAGGAGTGTCTTAGGATCTTGAATAACTGTTTCTTTTGTCCCTTCCTGCTGATGGTGTAGCATCGTATATCAGACCAAACAGGTGGCTTTTTCTGCAGTGTTTGTGTGCCTTCATTTTGTACAATCAAAATACCTGAACTATCCTTTCTTTAGATTTTTTAGGTGGTTAAAAACTAAACGCAGCAGTTGGTTACATTTTGGGAAACAGTATGGAGTGCAGTCTCAAAGATTGGCAGTACCACTCTCCAAGTTAATCTACGTGATAATTCTTTAACAGAAGTAAAAAAAAGTGTGCTTCTTGCTAATGAGTCACTTCTGCTTGATTAAATAAGCAACAAATTACTAAAACAAGGCAGTGATTCTTATAAAAAAAAAACCAGATTCTTTTTTATTTTTTGCTGTTTGTGTTTGTTTTATGCATGGGAAGATTGTCAAATAAAATATTAAGGCTCTATTAATTACAGAATTTGTTTCCATAAGTGGACCTTGCATGATTTATTTCATTGATATTGTGCTGTATAGGTAGCAATGTAGACAGCAGCCCCTCACATTCATTCATTCTGACCTCTGTTTTCAAGTTGGAAGGCTGTGAGTGTTGTGAAACTGACACTTCTTGAATAAAAGGAATTGTAAGATGTGTCCCTAGAGCACCCTCATGACACAGGCAGGGGGGAGTTGCTGTTACATTGTAGAGATCTAGAGAAAAGAGGTGCTAGTTCCCTGTAACCACGTTTGATGTGATAGAGTAAAAAACATCAGCATTACTTGAAAATACTAACACTGCAGTTATATCCCTCAGAGAATAAGTGTATTGAAGAATGAGCCATGTTCTCTTGCTATAATACACAGAAAGGAGTAAAAAAGGCTTCTATTTGTCTTTGCAAAATATGGCTCAAAAATGATTTTTTTTCTATTATGCACATAGCAAATCACTAAAAAGGATTTGCAACATATCTTCCAGTTTGGCTCTCAGCGCAGCTGTGGATGTGCTACCAATCACTTTGGCTCTCAGATGGCCATCACAAAATTTGAGAAGTAATTTGTCAATAATTAATTGTTTCTCAGGGTATGTGAGAATGGAATCTCTTTGTTCCTTAGTTGTCCAGGTTGAACACACCAAAAGGAGCCCAAGGGGAAAGGTGAAAGTTAAGAAGCATGGATTTCCAATTAAGTCACATTCTTTAATTTTCAG
Seq C2 exon
ATAAAACTTTCCCCCGGTTTAAAGAAGCTATTCACAGTCACAGCAGTGAGTGCAATATCTGTCATTTTTCTGGCACATCATTTCAAAAGAAAACGTGGAAGGAAAAACAAGCAAGTGTCACCATGGGAGCCAGGTCATCTACTGTTAGAATGTACCAAAGCAGCTGCATCAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008951:ENSGALT00000014556:1
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=0.050
Domain overlap (PFAM):
C1:
PF102654=DUF2217=PU(3.7=21.2)
A:
NA
C2:
PF102654=DUF2217=FE(30.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGGAGGCTGTTATTGAGGC
R:
TTTCTGATGCAGCTGCTTTGG
Band lengths:
270-1564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]