GgaINT0124470 @ galGal3
Intron Retention
Gene
ENSGALG00000007113 | TNC
Description
NA
Coordinates
chr17:3070631-3071656:-
Coord C1 exon
chr17:3071497-3071656
Coord A exon
chr17:3070901-3071496
Coord C2 exon
chr17:3070631-3070900
Length
596 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
TTTTCCTCTCATTAAAACAGAAC
3' ss Score
7.99
Exon sequences
Seq C1 exon
CAGAAAAAGGATGATAATGGAGACATAACCAGCAGCTTGAAAAGGCCGGAGACATCATATATGCAGCCAGGATTGGCACCAGGACAACAGTATAATGTATCCCTTCATATAGTGAAAAACAATACCAGAGGACCAGGGCTATCCCGAGTGATAACCACAA
Seq A exon
GTAAGCACAACCTGTATAGCAATAGTACAACCAGTGAAACAACTGCTGGTTGGTGTAGCCTGGGGAGTTTTAAAACAAAGAGAAAATTTAATTCAATACGGTGCATTCTTAGGGAAATAGAGAGAAGAAAAAAAGCATTGGAGCTTTTAATGGCAACAACATGAGAAAAACATAATTGGTTTCCAAATCACCTGTTTAAAGAGGAAAGGAAATTTATTTTTGTCTAGAAGGTAGCTACCAGCATGCACTTTTATTCTTTCCTAAAAGGTATGTCCACAGAAACTAGAACTTCTTTCTTCCTGCTGATATTGGCATGAAGAAATTGCTTAGGAAAGAGTTTCTATTGTATAGAACTCAGAGCTTCTGATTGTCCTTGTTTTGGCAACCTCAGATGTTAATGAATTTAATGAATTTGTTTCTGATGAATTGGTCCCACTTGGCAAGTAAGGAAGAAAGTAAATGAAGACAAGCTTCACTTTGTAGAAGCCACTCATGTTAATTTTGTTCTGAAGCAATTAAAAGCCCAAGTAAGTGTTATGAATTTTCTGTTAAGATTTATTTAATTCTTTAATAACATTTTCCTCTCATTAAAACAG
Seq C2 exon
AACTCGATGCCCCTAGCCAGATTGAAGCGAAAGATGTCACAGACACCACAGCTCTGATCACATGGTCCAAACCCTTGGCTGAAATTGAAGGCATAGAGCTCACATATGGCCCCAAGGATGTTCCAGGGGACAGGACTACCATTGACCTCTCTGAGGATGAAAACCAATATTCTATTGGAAACCTGAGGCCACACACAGAATATGAAGTGATACTCATTTCTCGGCGAGGGGACATGGAGAGTGACCCTGCAAAAGAAGTCTTTGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007113:ENSGALT00000011523:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.519 A=NA C2=0.495
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(54.2=83.3)
A:
NA
C2:
PF0004116=fn3=WD(100=90.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTGAAAAGGCCGGAGACAT
R:
CCCCTCGCCGAGAAATGAGTA
Band lengths:
357-953
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]