GgaINT0123855 @ galGal3
Intron Retention
Gene
ENSGALG00000004701 | F2Z4L4_CHICK
Description
NA
Coordinates
chr17:5838193-5839545:+
Coord C1 exon
chr17:5838193-5838306
Coord A exon
chr17:5838307-5839374
Coord C2 exon
chr17:5839375-5839545
Length
1068 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
CTTCCTAATTTTGCTTTCAGGAT
3' ss Score
10.44
Exon sequences
Seq C1 exon
TATTTTGATGAGAATCCATACTTTGAAAATAAAGTTCTCTCCAAAGAGTTTCACCTGAATGAAAGCGGAGACCCATCTTCAAAATCAACTGAGATCAAATGGAAATCTGGAAAG
Seq A exon
GTATGTATCCGTGTATCTGGGAGAGGCAATTGCTGCTGTATGTGATACCATCATTTTCATTTGTGTTCCTTTTACTTTTTTCATCATTGCGGTGCTCTCTTCCCCTTTCCACCCCTTTCCCTCTTTTCTATATGTGTAATTCATGCTATGTAACACTTACATGGAGATACGTAGTTAATTCTCAGTTCTGTACAATAGCTCAACTGAGCTGTTGTGCAGAAATTACAGTTTTCGTATGAAGTAGCTGAATGGTCTTTAAAATATGCCACAAAATTGATGTGAATTTTGGTATTGTTCTTCATTTAAATAATGTAAGTCTATAAATGTTACAATTCTATCAAGAAAACAGACATTGGAAGTTCTGAGTTCTTATAACCCAAGAAAGAATGGGTTAAATACAGGATGGTTGCATTCTTCTCAAACTTAAGAATCAGGTTGTTAAGAACTTAGGAAACTTTTGGTCTGATGTGGTGGATGGATGTTCTTGTGACCATATGTTTTAGTGGTGTGTGCATGTTTATTTGCTTACCACAGAGAATGTCCTGAAGACTTCAAAGCAGAGAGTGTTAAGATAAGAACACCAGGCAGGTCTGCATCAAAGTGTTAAGTTAATGACAGAGTTTAGAAGTGTGGAGACTGAACGTTTCTTAAACTGTGTGTTTATGTGGTAGTTGTAGCATTGAGCTACAATCGCAGCAACTCTAGAGTAGTATTAAGCTATTTTAAGTTTGGCATTTCAGTAAACACTTGTTTACTTCCCAGGACGGGGAGGCATAAAGGAAATGCAAGTTCTTGTGTATCCGCAGTGTGTCAGTGGAAGTCACTAAAAGAAGCAAGTAGGCTTGCTACTGAGTGGCACCTTTTGCTGTGAATCCTTCAGGTTCCAAATGTTTATTCTAAGATTTTTCCCTGAAAGATGGAATAAATGACATATTTTGGTTGTTTAGACAAGTATGTTTCTAAATGGTGCTCATGTTTTCCTTTTTTTGGGGGTGGGGGAGGGGGAGGAGGGGAACACACAAAAATGTGTAAAAATGTATTTAGGGAACTTCCTAATTTTGCTTTCAG
Seq C2 exon
GATCTGACAAAACGTTCAAGCCAGACACAGAACAAAGCCAGTAGGAAGAGGCAGCATGAAGAGCCAGAAAGTTTCTTTACCTGGTTCACTGACCACTCTGATGCAGGTGCTGATGAACTAGGAGAGGTCATCAAGGATGACATCTGGCCAAATCCATTACAGTACTACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004701:ENSGALT00000007488:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.474 A=NA C2=0.947
Domain overlap (PFAM):
C1:
PF0095613=NAP=FE(18.9=100)
A:
NA
C2:
PF0095613=NAP=FE(28.6=100)
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:
CTCTCCAAAGAGTTTCACCTGA
R:
AGTAGTACTGTAATGGATTTGGCCA
Band lengths:
247-1315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]