GgaINT0106212 @ galGal3
Intron Retention
Gene
ENSGALG00000006643 | HSP7E_CHICK
Description
NA
Coordinates
chr1:7853909-7854604:+
Coord C1 exon
chr1:7853909-7854070
Coord A exon
chr1:7854071-7854448
Coord C2 exon
chr1:7854449-7854604
Length
378 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
ACAGACTTTTTTTAATGTAGGTC
3' ss Score
6.77
Exon sequences
Seq C1 exon
CAACGTGTTGGTTTATAAGCTTGGTGGAACATCGCTGTCTATCACAGTTATAGAAGTAAACAGTGGAATATATCGTGTGCTTGCTACAGACACAGATGATGGCATTGGCGGAGTGTACTTCACAGAAGCTTTAGCACAACATTTAGCATCTGAATTCCAGAG
Seq A exon
GTAGGTTCTGAATGCCAAGTATGTTGTCAAGACAGGAACTTCATTATCTGATGCTTGTCTTCAAAAAAGGAATTCATATTNNNNNNNNNNAGTAAAGGAACAGCCAGCTAGTGGAGGCTGTTGGAGCTGAGAAACATTTCAGAGACTTAAATCTTTGTACTAAACATTAATGTCCACGTTAAGAGGAGTACCTCCACACAGTGTTCTTTAGTTGGAAAAGAAACAGGTGCTCTCATATTCTGTGAGCTTTCAGTAGAGTCATTGTAGGTAACGCTAAAATGTCTACAGACAAATGTTAACAGCTCTGAATAATTTTTTTCAGAAAGTTATGTTGCCATTCAAATGCTTGCCTTCCTAAACAGACTTTTTTTAATGTAG
Seq C2 exon
GTCTTGTAAGCATGACATCAGAGGAAATCCCAGGGCTATGATGAAGTTAATGAACAGTGCTGATGTTGCAAAGCACTCATTATCGACATTGGGAAGTGCAAACTGTTTTGTAGATTCACTGTATGATGGATTGGATTTTGATTGTAATGTATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006643:ENSGALT00000010732:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(10.7=100)
A:
NA
C2:
PF0001215=HSP70=FE(10.3=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:
AACGTGTTGGTTTATAAGCTTGGTG
R:
TCAAAATCCAATCCATCATACAGTGA
Band lengths:
302-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]