GgaINT0125919 @ galGal3
Intron Retention
Gene
ENSGALG00000000847 | GARNL3
Description
NA
Coordinates
chr17:11171041-11173286:+
Coord C1 exon
chr17:11171041-11171176
Coord A exon
chr17:11171177-11172284
Coord C2 exon
chr17:11172285-11173286
Length
1108 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
TTTTTTCCTTTGAGTTTCAGGTG
3' ss Score
5.48
Exon sequences
Seq C1 exon
TCGGATATTTATTTTAAAGCTACTGCTGCAGTAAGTGGATCATCTCATAGCAGTTCTAAGGAAATGAGTTCAAGGAGTTCACCTCAAACACCTACAGCTTATGACATGCTGGAATGTTCTCTTTCTTCTTCAGAAG
Seq A exon
GTAATATGGTTTCTAGGCAGCTTGAATAATTGTCTCTGATTGTTTCAGCAGCTTCCACATCTCATTGTAGCTGATATTTAGTAAGATGAAATTGATCAAATAAAAGATTGAGTTCATAGTTGAGAGTCTGGAAGATAGGAATGTTGTTTACCCAAAGATGTGAATCATCTGGCTGAGCTTTTGCCCCACTGTATCTCTTTTGAATGCATGGCAGCATTATTTTGAAGAAATCATTTACACAGGGGAGGAGAAATTAAGCTTTACTAGCTAGATGAATCTCTGTCAGTGTGTCCAAGACTAAAGAAAAAAAGCATAAAATAATGAGGAAAAATTTCAGACTTCACATACACCATTCCTTTCACTTAAAAACAGCTAAACCATCCCTCAATGATTAGAGTTCTTTTCAAATTCAGAATAAGAAGCATTTCTAGTCTCAAAAGAGTTTGCACAATCACTTTACTGTAAGGTAATCTGTGAACAGTTGATCTATAAAGGAGCATTAATGGAGAAACATGGGAATATCAACTAGATAATGCAGTATGTATGTATGCCTTGGTCTTTTAAATCTGGTACTGTTGGCAGAAAGGGAAAAGAGAAAGAAATCAGAATTTCAATTTTTAATTGTTAGGTGGTTCCCCCCCCCCCCAAAATTAGGAAAATGCAGAGTGTTTTATGTCGCTTAAGAGAAGCCATAATTTAAACTATTTGGGATCCAGACTCCAATATTCTGGCCGCATATTAAAATATCTGGGGAATCTTGAACAGAATAGTGAGTCATGGTCTTACAGATGGGATATCAGCCTTAGGACATGTAAATTTGCTTCCTTTTTCCATCACTGATTCATCACCTTGCTGAGAGTCAACGATCTTTTCCTCTGTAAGCCAAAATGTCAGTGCAAAATGTGGTTCTATTTCTTCCTTCTCCTATCGTACTTATATTGAAAGGTGCAAAGTGAGAAAGATCTTGAAGAAGAAAGCAAGAAAGGTTACTTGAGTTAAAAAGAACCCCACACAATGATTATAACTTTTCTGTATTTTTTTTTTTTTAAGTATTAAGAACTGATACTGTTGTGAAAGAGTAACATTCTTTTTTTCCTTTGAGTTTCAG
Seq C2 exon
GTGAAGTTGCATGTAAAAACTTGTATAAAATTCCTCTTAGTAATCTGGTTGGGCGAAGCATTGAACGACCTCTGAAGTCACCTTTGACTCCTAAAGTAGTCACTACTCCAACATCCAGTGGCATTACCTCTCTTCCTGTTACTCACTCACTATCCTTATCTCGCATGGAAATTAAAGAAATTGCAAACAGAACGCGTAAAGAATTGCTGGGTAAACTCCCCTTGTTCTTCAGTGTATATATCAGTTACCACTAATACCATTTCTAATTTTTGGAGCATCTTTGGACTAATCTCATTACAGTCAGATTAGTGACAGACAATCAGTGTTCATAAATAAGTAGCTCAAACAAAACAGTAAGAAAATGCTGTTTGCAAAGTCTAGATAGTGTCTGGTCATATATAAGGTGACCATATTCTAAGTCAGCTGAAAGGTATTTAGTTAAAAATGAAAATCCATGAAAAAATTAAAGTGGAAAAAGAAACAACATTTTTGTGAATGCTTTATCTTCTGATGAGAATATTAAGACTTTTATTCCTTTATTGAGGCCTCTTGGATGAGCCTATTCCCAAGACAGAAGGTGCACAGAAGCAAAAAAAGGTTTCTCGAAGACAGTCAGACCCCAAGCAGGGAGCAGTAAGATCAACTAGTAGTGACAGGTAAATAAATACGTGGGCTTTAGGAAAGAGCCTAAGTTAGACCATAAGTGTTTTGAGAATTGATTGCTTTTCAACTGGTTTATAGTTTTCCCAGTTGGGTAGGGATTGACTGAGGCCTTTGTGAATTTCATGCTAATGAGTGGTTTAGTATTTAATAACAGTGCTGAAATGCTTATGCATATTGCTAAAAGACATGTTACGAGTGAAGCAAGGCCAAATGGGATTTTGTGGGGAGCTACTGCAGTTGAGCCTGTCACTAGGATTTGAACTGCTGAATTCACATTGCAGACTGAATTATTGTTTTCTTCATGTCTTTTTGTCTCACTATTTCCAAAATAAATTTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000847:ENSGALT00000038633:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(0.1=0.0)
A:
NA
C2:
NO
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:
GCTACTGCTGCAGTAAGTGGA
R:
ACACTGAAGAACAAGGGGAGT
Band lengths:
353-1461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]