GgaINT0125620 @ galGal3
Intron Retention
Gene
ENSGALG00000005095 | F1NYW3_CHICK
Description
NA
Coordinates
chr17:5432154-5432930:-
Coord C1 exon
chr17:5432780-5432930
Coord A exon
chr17:5432339-5432779
Coord C2 exon
chr17:5432154-5432338
Length
441 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TGCAGCCCTTTGTGTTGCAGCTT
3' ss Score
8.52
Exon sequences
Seq C1 exon
ACACTAAAAAATGCCTGGTTGCAACGCTATGCTGTCAACAGTGCTGACCCTGGAGTCTTTGTCCTCTTGGCCTGTGGCACCATATCCAGTACCTGCGGACAGCTTGCCAGTTACCCCCTGGCTCTTGTGAGGACACGCATGCAGGCCCAAG
Seq A exon
GTGAGAACTCTGGGGAACTCTGTGTAGTGTTGTACTGTTCTGTGTAGAACTCCTGCCATGGTCTCTGAGCAGGGTAAAGGTCCTGTGGTGCAAACACTGAGACAACAGCCTTAACTGGCCCGTGTGGCTGAGCAGTAGGCTGTGTGCCACGCTGGACAGTGGACTTTGTGCTGTCCTCTGGAGTCAAATGCCTCTGGGACAGAGTAGTTCTGTTTTCCTCAATCAAGAGTTTGGGTTAATGGCATCTACAGAGCAGTTTGGGAAGATGGCTGTGATGTGCAGCATAACCACGGCTCACCGACAAGTTGGGTGTTCTGCTTACCTTTGGTCCGTGAGCATCCGTGGGAAGTGCATGATTCAGAGCTGCCCTGTGAGACAGGTGTTGGCTCCGTGCCTCTGTGGCATAGATTGCATTACTTATTGCAGCCCTTTGTGTTGCAG
Seq C2 exon
CTTCTGTGGAGGGTGCTCCCGAGGTGACGATGAGGGGACTGTTCAAACACATCCTGAAGACCGAGGGAGCGTTTGGCCTTTACCGGGGTCTGGCCCCGAACTTCATGAAGGTGATCCCAGCCGTAAGCATCAGCTACGTGGTGTATGAGAACTTGAAGATGACGCTGGGCGTGCAGTCACGGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005095:ENSGALT00000008172:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0015322=Mito_carr=PD(9.7=17.6),PF0015322=Mito_carr=PU(73.5=70.6)
A:
NA
C2:
PF0015322=Mito_carr=PD(61.5=95.2)
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:
AATGCCTGGTTGCAACGCTAT
R:
GCCCAGCGTCATCTTCAAGTT
Band lengths:
312-753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]