GgaINT0106213 @ galGal3
Intron Retention
Gene
ENSGALG00000006643 | HSP7E_CHICK
Description
NA
Coordinates
chr1:7854449-7855938:+
Coord C1 exon
chr1:7854449-7854604
Coord A exon
chr1:7854605-7855835
Coord C2 exon
chr1:7855836-7855938
Length
1231 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTTTTTTCTTTCTTTTTAGGGC
3' ss Score
13.89
Exon sequences
Seq C1 exon
GTCTTGTAAGCATGACATCAGAGGAAATCCCAGGGCTATGATGAAGTTAATGAACAGTGCTGATGTTGCAAAGCACTCATTATCGACATTGGGAAGTGCAAACTGTTTTGTAGATTCACTGTATGATGGATTGGATTTTGATTGTAATGTATCCAG
Seq A exon
GTAAGACAAACCTTGAAGCTACTACTGTTGCCTGAAAGTGTGCTGTAAGTTTTTCTGTTCTGTATTTAGAATGTTGATAAGCTTTGGAATTTGGCAATGCTAAGCTTTAGAAAACAGAAAGAAAGATGGAAGGCCAACTTGTGGGGTTTCTTTTTCTCTTGAGCTGTCTCTCCTGTTGATTCTTTCGTGTCATGATCTGTAGTAGCTGAGCAGTAACATTAGAAATGTTTCTGTAATAGATTAAAAAAAAAAAAAACCTGAAAAGGTACATGGAGATCCAATTTTTGGAGTCTGATCCCTGATGAAAGGCAAATAGATACTAAATTACTCAAGATGTTTTTCCCATTTCCTCCATTCTTTTTGTTGCTGTGTTTTGTTTTGGTTTTTTTTCTTACAGAAAAGCATTTTGGGACTCTTAGCTAAATGAGCTCCAGAATGATAGGAGTCGTGGATATCTTCATGTTGTCTTTTTGATAGCTGGAGTGGAAAAAGTTTTTATCACCTTGTTTATACTACTGTGCCCTGCATTAAGCACTTTCCTTCTTGGAAATGATCTCTTAGTGAAGTATTCAGTAACTTTTTATCATTCTTCCAGTCACCAGCAGCTTTGGCAAAGTGAAATTGGGCTTTAGTTTTCTTTTTTCAAAGCTGTGCGTGCATTATAGCAGCAGTTAGATCTGGTGAAGTCAGGCACAGTGTCTCCAAGCATGAGAAGCTCTGTTATGGAGCATGTTCGACTCAGTGGGGATAACGATGCTCGTGTCACAGAATTTGACTTACTTTGTTTTTGTGGAGTGAAAGATCCTATTCAGGTTTGAAAGAGCCTGAATTTAAGAGCAGGTTGCTTTTTAATTTTATGAAGTACCTACCCTCAGGATGCAGTTTGATTGCATTTGAACTCTTAAAGTTCAAGTTCAAATATTTTTGCTTCTTTATTGTTGTTTTCTTGAGACTGTTTCTTTTTTTTTCAAGAGTACACTAACAAAAATGAATCTGAATTTCCTAAAGGTGTTAATGATAGAATAGGTAGTACAGATATTATCTTAACAAAAAGAATTCCTTTAAGATTAATCATTGGGAAATAAGATCTTGACTGCTTAAAAATGGCATAAAATGAGGTATAGCTAAAGAAGTAAAGTATATTCTAAGAATGATTGATCCATTTTAGGTGCTTGTTGCTAATGAATGACATTACGTGGTTTTTATTGTGTTTTTTTTTCTTTCTTTTTAG
Seq C2 exon
GGCCAGGTTTGAACTGATCTGTTCTTCGCTTTTTAGTAAGTGTGTAGAAGCAATTAAAAAGCTCTTGGAGCAAGTTGGATTTACAGCTGAGGATATCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006643:ENSGALT00000010732:9
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(10.3=100)
A:
NA
C2:
PF0001215=HSP70=FE(6.8=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:
GTCTTGTAAGCATGACATCAGAGGA
R:
TGATATCCTCAGCTGTAAATCCAACT
Band lengths:
254-1485
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]