Special

GgaINT0021953 @ galGal3

Intron Retention

Gene
ENSGALG00000008294 | Q9DEX2_CHICK
Description
NA
Coordinates
chr12:19080944-19081592:+
Coord C1 exon
chr12:19080944-19081085
Coord A exon
chr12:19081086-19081433
Coord C2 exon
chr12:19081434-19081592
Length
348 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
GGGTTTTAATAAATCCATAGATT
3' ss Score
5.14
Exon sequences
Seq C1 exon
ATCTGTTACCAAATTGTTGGAGGATTTGGTCTACTTTGTTACTGGTGGAACTAATTCTGGGCAAGACGTCCTTGAAGTGGTATTTTCTAAACCTAATAGAGAACGGCAAAAACTGATGAGAGAACAGAATATTCTAAAGCAG
Seq A exon
GTAGACTGCATTTTTCTCTAAACTATGCCTACAAGAAGGGTTGTTGGAAAGGAGATCCTAGTAGTAGAGAACCTGGTCAAAATGGTGGGACCAAAGGATCCGTTGAGTTTTTAGCTTTTGGCAGCTTGGCAGTGGACTCTGGGCATAGTATTGCTAGAAGAAAAGATTATAGAATATAGTGCTGATCTTGGCTACTCTGTGGCCAAGGAACAAACACTGCAACTACAGTGTGTTTCTGACATACCTTTTTGAAATTCGTAAATGCTAACACAGTACCTTTACGTTAATTTTAATCAAATGGAGGCAGTGCCTCATGGGATTTATGTTTGGGTTTTAATAAATCCATAG
Seq C2 exon
ATTTTCAAGTTGTTGCAAGCACCATTTACAGACAGCGGCGATGGCCCCATGCTGCGGTTGGAGGAGCTCGGAGACCAACGTCACGCTCCATTCAGACACATATGCCGGCTCTGCTACAGGGTGCTGAGGCATTCTCAGCAGGATTACAGGAAGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013505:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.083 A=NA C2=0.038
Domain overlap (PFAM):

C1:
PF0136516=RYDR_ITPR=PU(22.3=95.8)
A:
NA
C2:
PF0136516=RYDR_ITPR=FE(25.2=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:
TGTTGGAGGATTTGGTCTACTTTGT
R:
TGATTCTTCCTGTAATCCTGCTGA
Band lengths:
286-634
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]