GgaINT0121812 @ galGal3
Intron Retention
Gene
ENSGALG00000014212 | C12orf59
Description
NA
Coordinates
chr1:81590342-81591205:-
Coord C1 exon
chr1:81591036-81591205
Coord A exon
chr1:81590593-81591035
Coord C2 exon
chr1:81590342-81590592
Length
443 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TTCTGTCTCCTCCTTTTCAGCTC
3' ss Score
10.95
Exon sequences
Seq C1 exon
GCTGGTGGTTGTGATTGGTGGACTGCTGCTGCTGTGCGGCTTGGTTTCTGTCTGCGTGAGATGTTGTCTCACTCACTGCCGTCAGGCTGGGGAGGAATCAGGTCTTCAACCCTATGAGGTCACTGTCATTGCTTTTGATCATGACAACACCCTCCAGAGCACCATTACCT
Seq A exon
GTGAGTTGGCTTTGTCAGATAGTGGGCACCTCAGCATGCCCTGCTGTGGCGGTTGCACCATAAAATGCCCAGACTGAGGCATATCAAGTCCTCCAATGGGCCGGCAAGGTGCTGGGAATGTGGCATCTGTAAATACTATAAATTAAGGTACTCACCAGGCCTTATGTAGCAAATATGGTCAGATGATGAACTGTGTAAAGACATGTTTGGGTGGACTATGGGCAGCTACCAGATCCTTGATGGCATTAGAGGAAGGAGTAATTATGGGATGTTGTTGATGGGGCTTCATTCCTCCCTTTAGGGGAGGACTAAGGGGCGGGAAAACATTCAGGCCATGGTGAGAGAAAAGCGTGTGCATTGCAAATATACCTGTCTACCTGTCCCACTTTAATTGTACATGGCTTTCAGGATGAGGCAAATAGCTTCTGTCTCCTCCTTTTCAG
Seq C2 exon
CTCTTCATTCGGTGTTTGGGCCAGCTGCCAGGAGGATCCTAGCGGTGTCACACTCCCACAACACTGCGCAGGGCACGCCACCCCTCGCAGCATCAGACACCCCTCCAGTCTACGAGGAAGCTCTACACACAAGCAGATTCACAGTTGCCAGGGCGGGGCAGAAAGTGCTAGACCTGGATCCAGTGACAAAAGAAAAACTGCAGACATCTGCCGAGGATAAGGATGCCCAGCCAGTCTTTGCAGAACACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014212:ENSGALT00000022982:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.410
Domain overlap (PFAM):
C1:
PF149791=TMEM52=FE(39.3=100),PF0160111=Corona_S2=PD(81.5=91.4),PF0145612=Mucin=PU(45.5=86.2)
A:
NA
C2:
PF149791=TMEM52=PD(45.5=78.6),PF0145612=Mucin=PD(53.6=70.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTCTCACTCACTGCCGTC
R:
AGACTGGCTGGGCATCCTTAT
Band lengths:
345-788
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]