GgaINT0112306 @ galGal3
Intron Retention
Gene
ENSGALG00000017006 | F1N8V8_CHICK
Description
NA
Coordinates
chr1:173514213-173515629:+
Coord C1 exon
chr1:173514213-173514382
Coord A exon
chr1:173514383-173515412
Coord C2 exon
chr1:173515413-173515629
Length
1030 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TTTTTTCATTTTTCTTCCAGGCA
3' ss Score
10.71
Exon sequences
Seq C1 exon
GATTTATGAGTGCAGCGTGTCATGCAGATGTGACAAGATGATGTGTCAGAACAGAGTTGTACAGCATGGCATTCAAGTTCGGTTGCAAGTGTTCAACACAGAGAAGAAGGGTTGGGGTGTCCGCTGCCTGGATGACATCGACAAGGGGACGTTTGTTTGTACTTACTCAG
Seq A exon
GTAACAGAACATGACCCATGGAAGACCCATAGCATAACTTCTACCTCCCCTGTGTCCTATGCCATGGAATTCCTTTGACAACCAAGCGGGGAAGCTTGAAGTTGGAAAAGAAGTGAGTCTGTATGACCTTAACTTGCAGATGATCGAACAGACGGAAAAACCTTGAGGGATTCTGCATTGTGATGGTGCTATCTGGAGTAAAGCCTGTCACACATACATTTTCCCTCACAAGTCTCTGCATCCTGTGCAAAGGGTACTTTTCCTTCAGTATAAGTGCATTCATCTATTGTTTTCCCAAATAATTCTCTTGCCTTGAATACAAGATTGCACCTTGAGTACTGTGTCCGCACCTTGAGTACTGTGTCCAGTTTTGGGCCCCTCACTGTAAGAAAGACATCAAGGCCCTGGAGCGTGTCCAGAGGAGGGCAACAAAGCTGGTGAGGGGTCTGGAGCACAGACCTTATGAAGAGCAGCTGAAGGAGCTGGGGTTGCTCAGTCTAGAGAAGAGGAGGCTCAGGGGAGACCTTATTGCTCTCTATAATTACCTGAAGGGAGGTTGTGGTGAGCTGGGAGTCAGCCTCTTCTCCCGGGTGACTAGTGATAGGATGGAGAGGGAATGGCTTCATGCTGCGCCAGGGAAGGTTCAGGCTGGACGTTAGGAAATACTACTTCTCTGAAAGGGTGGTCAGGCACTGGAATGGGCTGCCCAGAGAGGTGGTGGAGTCACCGAGCCTGGTGGTGTTTAAAGAGCGTTTGGATGTTGTGTTGAGGGACATGGTTTAGCGAGAATCATTGATGAAGGGTGGATGGTTGGACTGGGTGATCCTGTGGGTCTTTTCCAACCTTAGTGATTCTATGATTCTATGATTGAGCTGGGATAGTGTGTGTGACCCAACTTTTAAGTAACTATTATTTTTTAATAAGTTAAATTAAGTAACAATTAACTAAGTAACTATTAAGTAACTATTAAACTAATTAACTAATAACTTAAATTAAGTAACTATTAATTTTTTTTTCATTTTTCTTCCAG
Seq C2 exon
GCAGGTTAATGAGCAGAGCTGAAGTTCAAGAGCTGGGAGGTGCTGATCAAGACTTGAAGGAGGAGAGTGCTGTGAATGACAGAGGGCAAAGCTTCTTCTCCAAAAAAAGAAAACTCGACTCCAGCTGTTCAGACTCTGAGATTGAACTCGTGCTGACTGGCAAAGATGACATTCTTGAGCATCAGCAGTCTGCTGTTAATGAAAATGACTCAACTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000036477:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.247
Domain overlap (PFAM):
C1:
PF0503311=Pre-SET=PD(17.6=31.0),PF0085623=SET=PU(10.2=34.5)
A:
NA
C2:
PF0085623=SET=FE(34.3=100)
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:
CAGCGTGTCATGCAGATGTGA
R:
GCAGACTGCTGATGCTCAAGA
Band lengths:
351-1381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]