GgaINT0039121 @ galGal3
Intron Retention
Gene
ENSGALG00000008951 | FAM73A
Description
NA
Coordinates
chr8:19678642-19680224:-
Coord C1 exon
chr8:19680114-19680224
Coord A exon
chr8:19678820-19680113
Coord C2 exon
chr8:19678642-19678819
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
AGAGAAGGAGCCATGTCAGAGGAGGCTGTTATTGAGGCACGCTTTTCTCTGAAGACAGTGGCTCTACGGGCATTTCACCTTCCCGTGTCCTGGTATCACTCTCTCACACAG
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(1.3=18.9)
A:
NA
C2:
PF102654=DUF2217=FE(10.8=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:
AGAGAAGGAGCCATGTCAGAGG
R:
TTTCTGATGCAGCTGCTTTGG
Band lengths:
286-1580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]