GgaINT0108363 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1P3E8]
Coordinates
chr1:136655319-136656263:-
Coord C1 exon
chr1:136656142-136656263
Coord A exon
chr1:136655485-136656141
Coord C2 exon
chr1:136655319-136655484
Length
657 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CATATTATTCGTATGTTTAGGAA
3' ss Score
6.45
Exon sequences
Seq C1 exon
GTTATCGGTACACCTCAGAGACCTTCAGTGCCAAATACTATCCTGGTAGGAAGTCCACATACACCTAACACACATTTTGTATCACAAAACCAGACTGCAGATTCTTCGCCGTGGTCTGCTGG
Seq A exon
GTGAGCAAAATAAAAGTTACAAAGGATCAATAAATTACTTAGAACTTCTGCTCTCAATGTTTGCTGTGATAGTGTATGTGCTCCTCATGCTAGCAGTGTGGGAAACACAGTCTGTTTACCTTCGAATCAGGAGCACTTAAACATTAAAGTGTACTGTACTAAAATCAGATACAGTCACACAAGAATGATGTGTCATAAAAGCAACTGGGATGTTCCTATGAACGCTGGCAGGTGTTCTCACATTGCTTACATTTCAAGAATTCAGCTCCTAAAAGGACATGGGAATTCATCTGAGTTGACTCCGTTTGTAGTTTCGCATTTCTGTTTTGCTGGAGTACGTCCAAAAATACACAGCATACTTCAGATTGAATAAGTATGTCCTGAGTTATCATTTGAGTTAAGAACTCGAGCCTTATTGGAAAAAAAATATAGATACAGTGATTGTGTTCTTCTGGTGTGTCTGAGCGGCAAGATAATAGAACCATTAGGTACTTTAAAGGGGAGAGGGTGGAATCACACAAAAATTGTTAGGAAGGGGAGAGGAGTAGAAAAAAAGGGAAGACCTTGGCTTTTCACAGCAGTGTGTCTGTATTTGAAAAAGAGATGTTAAGTATTCCAAAGTTCAAATCTTAAAAAACATATTATTCGTATGTTTAG
Seq C2 exon
GAAGCGGAACAGAAAAGGAGAGAAGAGCGGCACGGGTTTACGTCATTTCTCTATGAAGGTTTGTGAGAAGGTACAAAGGAAAGGAACCACCTCATACAATGAGGTGGCAGACGAGTTGGTTGCAGAATTCACTACCCCTGACGATCACATTTCACCAAATGAATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016823:ENSGALT00000027160:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.890 A=NA C2=0.571
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0231915=E2F_TDP=PU(56.6=83.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTATCGGTACACCTCAGAGACC
R:
GGTGAAATGTGATCGTCAGGGG
Band lengths:
278-935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]