GgaINT1000827 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NVZ2]
Coordinates
chr6:15475571-15477655:-
Coord C1 exon
chr6:15477610-15477655
Coord A exon
chr6:15475808-15477609
Coord C2 exon
chr6:15475571-15475807
Length
1802 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
AGCTTTCTTTCTGTGCCCAGTGT
3' ss Score
7.4
Exon sequences
Seq C1 exon
GCTCTCCTGGGATCCCAGCCCAGCCAAAACCATTTGCAGAGTGCAG
Seq A exon
GTAAGAACAAGAAGTTATTAATTCAGTCATCAGGCAGATTCTTTCCTGCAGTGGTGATCTGAGACCACAGGTACGATGAACCACTGCTATCTGGCTTTCTTCTCCGTCATTTCTTTCATCCTGTATGCCTCAATGTTTATCTCCTTCACCAACATGGCCAAACTGCTTTCTCTTCGTCATGTCTAATACTCTTGCACTTCTCTTTTCCTCCCCCATGTTCTTTTCCTTTCATCTCTATTTCTGCCCTGGTCTTTTTTTGCATGCTCACTCCACCTAGCAAGAACTGAATTCTCGTGTTCTCCCCTCTTAAGCTCCCAGGTAATCCAAAGAGCACAGTGTGTTTTTCAGGCATCTCACTGACCTAACTGTAATTGCTTGTCACTTTTGTACCTTGTAGCTAACCTTCAGCTGTCATTTACCTTTGCTGTTTGTCCTACATGTCTTTATAGCAGAAGAATTTTTCTGATTTTTTTTTTGTTGTTGTTAATGGAGCTATAGTTGTTATCCATTTTTTTAGTTTGCCCATTTTATACATACTTAAAAAACACACCCTCAGACAGAATCTTGTTCTAGTTTCTCTATTTCTTATTTCAGAGTCATGACTGGAGAGGTTGGGTTTTTTTTTTGGTTTTTTTTTGTTTTTCTCTTTTAAGATAATATTGAATTAAATGTTGGGATTTCTTTACATGAGATTTTTATATAGACACTGGCCTGGAACATTGGCATCTATGCTCTACCTTGAAGCTGATTGCCTTTCCTTTCCTAGGTTTCAGGCATGTGAGGTGACACGCTGTGTATAAAGGCATACGTACAATGAATGACAATGCCATTTCCAATCTTTCTGATTTACAGAATGAAATTACACCCAATTTTCAACTCTTCTCTGTCTCAATCAATTAAGGCAGGCAATTAATCTTTTGAAGAGCTTAGAATCAATTTTAAAAGCATCATATTCAGACACCAGAGGAGGTAGAAAAGGGGAAAAGTCTGTGCTGGGCTCAAAAGCAAGCCCAGAGTAAGGGCATATGTCTATTGAAATTACTGGCAATCAGAACCAGATCAAGTTGTTCGTGTTTGAGTCCAATTAACAAATTTTAAAGATCCAAGCAATTCATTATCTTCAGATCATTATTTTTTCATAGGTTGCTCTGAAAATAATAGAATCATTGAATGGTTTGGGCTGGAAAGGACTTTCAAGACCATCAATTTCCAACCCCCCTGCTCTCGGCAGGGACACTTCCCTCTAGACCAGGTTGCTCAAAGCCCCATGCAGCCTGGCCTTGAGTACCTCCAAAGTGGGGCATCTACAGCCTCTCTGGGCAACCTGTTCCAGTATCTCACCACTCTCACAGTAAAGAATTTCTTCCTAATAATATCTGGTCTAAATCTACCCTCTTCCAGTTTGAAACCATTTCCCCTTGTCCTATCACTACATGCCCTTGTGAAAAGTCCCTCCCTAGATTTCCTGTAGGCCCCCTTAGGTACTGGAAGGCTGCTATAAGGTCCCCCCCAATGCCTTCTCTTCTCCAGGCTGAAGAGCCCCAGCTCTCTCAGCCTGTCCCCACAGGGGAAGTGCCCCAGCCTTCTGAGCATATCTGTGGCCTTCCTCTGGACCTGCTCATTGTCCTTCTTGTGTTGGGGGTCCCAGAACTGGATGTAGTATTCCAGATGGGGTCTCACGAAGAGCCTCAAGACTGTAGACATAGAAGGTGGTTCAGGAGATGAGCTCATATGTCTGATGTTGTCTGATTCTCCATGGGTGATGCCTTAAGTATAGCTAACAGCTTTCTTTCTGTGCCCAG
Seq C2 exon
TGTCCAGTGGGTGTGGCATCGGACCTCTTGGGTACTACAATGGCTCGTTGGCTGTCACTGAGGCTGGGGCAGAGTGCCTGAACTGGGCAGAGTTCCCTGATTATGTCCAGCAGTACCCAGACCGTGGATTAGGGAACCACAACCACTGCAGAAACCCAGATGGGGGAACTACACCCTGGTGCTTCTTCCGGCTTGCATCAGGGGCCATTAGCTGGGCTAACTGTGATTGTAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005156:ENSGALT00000008280:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.050
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005113=Kringle=WD(100=95.0),PF0053013=SRCR=PU(6.7=8.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
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:
GATCCCAGCCCAGCCAAAAC
R:
TGGTTACAATCACAGTTAGCCCA
Band lengths:
271-2073
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]