Special

GgaINT0021943 @ galGal3

Intron Retention

Gene
ENSGALG00000008294 | Q9DEX2_CHICK
Description
NA
Coordinates
chr12:19070492-19071689:+
Coord C1 exon
chr12:19070492-19070578
Coord A exon
chr12:19070579-19071530
Coord C2 exon
chr12:19071531-19071689
Length
952 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
AACTCTAATTCTTATTCTAGCTG
3' ss Score
6.32
Exon sequences
Seq C1 exon
CATGCAGCCGATTTGGAAAAGAAGCAGAATGAAACTGAAAACAGAAAGCTGCTGGGAACAGTTATCCAGTATGGCAATGTGATCCAG
Seq A exon
GTAAGGTGTGAGCATCTCTTCAAGCCGAATGGGGGACTTCAAGCAAAATCCTGTACAGTGTGACTGCAAATTTATGAAATTCATTGAGAAGAATCTGTAGTTTTGAGTAGTGCAGCAGCACTGCCAAGTGTGATCCCAGGAAGCAAGGTCTGATCTCCATAAAGGTGCAGCTAGACCAATTCTTTTGTGATGGGTTAGCTGTGCTTTTTCTCCTCCAAGGTCATGTAATGATTTCTTTGGGAATGTTTTCTATGCTGCCTTACCGCTGGCTGTATGGAAATGACACAGGCACTGTGCAGTTCCAAACACAATTTCTTGCAGTCAGGTGTTCAGACATCAGATGGTAATCTGTAACAAAGGAGAGTGAACCCATATAAGCAGTGACAGTCCATTTAAGCAAAGGATATACCATGTACTGGGGACTGAAAAATATTGAAATCATGCATCAAACCCAAGAAAAATGGCAAGTACAGTAACTACATAACTGAGAAAGGCACACCTTAATAATTGGAGTATAATGTGAGCAGATGCTGGATCACCCTGAAACCAAAGCAGACTTACCTTCCAGTAGGTATGGTGCTGCAGCCCTTTCAAAGTAGGGATAATTACTGTCTAGTTCTCATTTGCCCTAATTCAAGGCAGTGGGTGACAAGGAGCATGTCAGAGCAGGCTTTCTTGTTGCATGAAGTTGGCTGACTGTCCTTTGCCATTTGGCATGTCCTAAAGTAATTGCAGTTAGGTTAGCTGGAAGGGCTTTGTGCAGGAGCACAGTGTGCCTACTGAAATAAGTGCCGGCAAAATCGTGCCTGAATTCATCATGCTTTTCCTGTAACATGATTTAGGTTTTATTTTGCTTCCTGTGTAATGCTGTGGTTGTCCTATACGTGCTCACTGTCTGTTGAGGGGAGGAAAAACGAGCATTCCTAGAACTGAACTCTAATTCTTATTCTAG
Seq C2 exon
CTGCTTCACTTAAAAAGTAACAAATACTTAACAGTAAATAAGAGACTGCCAGCTCTACTAGAGAAGAATGCCATGAGGGTGACCTTGGATGAAGCTGGAAATGAAGGCTCCTGGTTCTACATACAGCCATTCTACAAACTGCGCTCCATTGGAGACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013505:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.138 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF087096=Ins145_P3_rec=FE(12.4=100)
A:
NA
C2:
PF087096=Ins145_P3_rec=FE(23.0=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCCGATTTGGAAAAGAAGC
R:
CTCCAATGGAGCGCAGTTTGT
Band lengths:
238-1190
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]