GgaINT0059786 @ galGal3
Intron Retention
Gene
ENSGALG00000008332 | F1NXV6_CHICK
Description
NA
Coordinates
chr5:25596688-25597861:-
Coord C1 exon
chr5:25597772-25597861
Coord A exon
chr5:25596852-25597771
Coord C2 exon
chr5:25596688-25596851
Length
920 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GCAGTGTTCTGACTCGGTAGTTT
3' ss Score
2.74
Exon sequences
Seq C1 exon
GGCTGTACAGGATGGCGCACAGCAAAACCACTATGCTGCAGGGCCTGCTCCTTTTCGGCCTTCTGCACCTCACCTTGAGCCATGACGGAG
Seq A exon
GTAAGAACACAGGGAGACGGGCAGTACCAGTGGGTGATTAAGGAAGGAGGATGGGCTTAATTCCTTCCAGTGGTAAAACCTGTGGAAGGTTTTCCAGGTAATGCAGGAGGAGATTGTAAAAGCCTGTAGCTGGGAGCGAAAGGGTGCAGAGAGCAGAGTGAGCATACTGCTTCCCTGCCCGGGAGGATGCAGCAGCACCCAGCAGCTGGCAGGGAAAGCTGGTGACAACAGCTCAGTGGATTTCACAGGTCACCTGACTGATGGTGGAGAAGGAGAATGTGGCTCAGAACAAGACCCTGCGCAGCACAGCTGTGGGTCTTGTTAGTTCCTTAGCCCACTGGCTGCAACTCTGCATTGCCTCTCCAGCTACCCTTTATCTAAAGTTTAGGTCATACACAGTATGCAGCCTTCCTGCTTACTGCTCCTTTTCTTTTACTAGAGCTTCTACTTCATCCACTTGTTCTTAATATGAGGTCAGGTCCTTTCTAACCTACTGCGGTGTGGGGCAAGACCTGTCACAGGTCGCAGATCAGGGCCTGTGAAGATGAAGACTGAATTTACCTATGCCTATTGCAGTAGTCTGGAATTGGCAAGACAGAATTTCAGTGGTTGGCAGACAGCAGTAGCAAGCTCCAAGCAAACAAGCAAATTAGCAGAGCAGCTTTGCCAAGGATAGCAGAAGATTCTTGTCACTTCTGTGACCTGGACGAAGCCAATCCTGACAGATGAATTATAGTGAGACTGTTCTGATCATCAGCTGTGGACCTCACAGGTCCTTGACAAGGCTTCCCTTCTCTGTACGGTGAACTGGGGAGGCTGGGCTGTGGGAGTTACGCCAGCTGAGTGAAAACTTCAAGAGGAGACACAGGGAGCCTCCCACCATGAGCATCCCTTTGACTGGCAGTGTTCTGACTCGGTAG
Seq C2 exon
TTTTCCTGGAAAAGGGGCAGGCACTGTCACTGCTCAAGCGTCCACGACGTGCCAACAAGGGATTTCTGGAAGAGATGATTAAAGGAAACCTGGAGCGAGAGTGCCTGGAGGAGACATGCAATTACGAGGAGGCCTTTGAAGCCCTTGAATCCACTGTTGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008332:ENSGALT00000013559:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0059415=Gla=PU(76.2=58.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGTACAGGATGGCGC
R:
CGTGTCAACAGTGGATTCAAGG
Band lengths:
254-1174
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]