GgaINT1000664 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NIR7]
Coordinates
chr2:388461-389804:-
Coord C1 exon
chr2:389472-389804
Coord A exon
chr2:388890-389471
Coord C2 exon
chr2:388461-388889
Length
582 bp
Sequences
Splice sites
5' ss Seq
CATGCGCCA
5' ss Score
-11.99
3' ss Seq
TGTCCACCAAATCTCCCCAGGAG
3' ss Score
7.24
Exon sequences
Seq C1 exon
GATGACACCCCTTTTGTGTGCCCTGAGTGTGGGAAGAGCTTCCGGCAGAAGCCCAACCTCATCACGCACCGGCGCATCCACACAGGCGAGCGGCCCTTCACCTGCTTCCTGTGTGGCAGGAGCTTCAACCAGAAGACCAACCTGGTGACGCACTACCGCGTGCACACGGGGGAGCGCCCCTTCGCCTGCACCCAGTGCGGCAAGCGCTTCACCCAGAAAACCAACCTCGTGACGCACCAGAGCACCCACACTGACGTTCGCCCCTACCCCTGCGGGCAGTGCCAGAAGTGTTTCAAGGACAAGGTGTCCCTCAAAGCCCACCAGAAGACACAT
Seq A exon
GCGCCACGCCAGCGGAGGTGCCCAGGCCGGGGACCGGCTCCCACCCTGCCCTTTGGAGCTGCGCCCACACTGCTGCAGCCGGGCAGCCTGGAGCAGGAGGCTCCTTTCAGCTCCATGCCACCGCTGCCTGTTCAGAAGCTCCCCGAAGGCCAAGAGCTGTACTCGTGCACGGAGAAGGGCTTCCCCTCAAAGGAGCAACTGCTGCCCACACAACAGGCCCCGCTGGGGGAGCAGGCCTTCCCCTGCGTGCAGTGTGGGGAAGGGTTTTGCCCCAAGGTGACTCTGCTCCGGCCGCAGCATGGCCCCACTGCGGAGGCTCCTGCTGGCTGCACTGCGGGCTTCAGCCCTGGCCCACACCTCCTGGGGCACCTGGGGGTGCAGCCTGTCCTCGGGGATGGCACAGCCCCCGCACCACCCACCCCCGGAGCGGAGAAGCCCTTCATCTGCAATCAGTGCGGCAACAGCTTTGGCCTGTGGATCTCCCTGGTTGCTCACCAGAAGACTCACGTGGGGCAGAAGTCCTACCAGTGCCCTGAGCATGACAAGAGCTCCGGAGATGAGCTGTCCACCAAATCTCCCCAG
Seq C2 exon
GAGAAGGACATGGAGGGGAGAGCCTGGCTGTGCCCCGAGTGCGGGAGAAGCTTTGTGCAGTATGAGCGTTTGGTAAAGCACCGCCAGAACCACCGGGGCCGGGGTCCTTATCGCTGCGATGTCTGCGGGAAGAGGTTCAGCCTGAAGACCAACCTGGTGACTCACCAGCGCATCCACACCGGTGAGCGGCCCTTCACCTGCGGCGTCTGCGGCCGCCGCTTCAACCAGAAGGGCAACCTGGTGACGCATTACCGCACGCACACCGGGGAGCGCCCCTTCGCCTGCACCCAGTGCGGCAAGCGCTTCGCCCAGAAGCCCAACCTCATCGCCCATCAGAAGACCCACTCGGGCAGGCAGCCCTTCACTTGCCTGGAATGCCCCAAGCGCTTCAAGAGCAAGCTCTCCCTCCGGGTCCACCAGCGTGTGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004898:ENSGALT00000007821:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=NA C2=0.105
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(53.6=13.5),PF134651=zf-H2C2_2=WD(100=23.4),PF134651=zf-H2C2_2=WD(100=23.4),PF0009621=zf-C2H2=WD(100=20.7)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=17.5),PF134651=zf-H2C2_2=WD(100=18.2),PF134651=zf-H2C2_2=WD(100=18.2),PF134651=zf-H2C2_2=WD(100=18.2),PF134651=zf-H2C2_2=PU(29.6=5.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGCCCAACCTCATCACG
R:
ACGCTCATACTGCACAAAGCT
Band lengths:
357-939
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]