GgaINT0092073 @ galGal3
Intron Retention
Gene
ENSGALG00000015142 | F1NJD5_CHICK
Description
NA
Coordinates
chr2:109272108-109273675:+
Coord C1 exon
chr2:109272108-109272235
Coord A exon
chr2:109272236-109273333
Coord C2 exon
chr2:109273334-109273675
Length
1098 bp
Sequences
Splice sites
5' ss Seq
AAGGCAGGT
5' ss Score
2.53
3' ss Seq
CATTTGTGTTATTCTTGCAGTCA
3' ss Score
7.95
Exon sequences
Seq C1 exon
TTATTCCACTATTACTGCTGTTGTGTCCATGCGGCTCAGGAGCAAAGAAGGGATTTGCTACAATACCGGACTGTAGCGAAGAGACGTTGCGTAAATGGAACAGTGAAGGAGCAGTTCCTGAGGAGAAG
Seq A exon
GCAGGTTTTCCCTAATAGCATATTTCTTTGATTTCCATCCAAGTGCTCAGTTTTGCACTCGTCTCCACCGCATAATGAGCTAATGTTTTCAACCTGCACAGCAGATTTTAGCCACACATGAATATTAATTAAAGTTAACCCTGTTACGCTCAGTGAAGGATGCATGGAAGGGGAATTCCAACAGCAGCTCTAGAAACTCCAACCATAGTGTTAAAATCCCAAAGTAAAGGCAAAGGAATCAAGCACATGCTGATACTATCTGATTAGAAGATAAAGTGCAGGAAAAGCATCCATGCTATTTGCATCTGCAAGCCTGGAATGTTCACTGCCTGTTTGGGAGTGTACGGTAAAGCAGTGAAAGATCAGGTTATAAAACTTAGCTTCCCATCACCAGTTCAGAGTTTCAGGTTGCATTTTAAATAACTTTCTTGTGTGTTTATCTTCTTAAACAAATGATTATTTAAAAAAAAAAATAATATGATTTTAATATTATTACAAATTTCTAAAAAGGCAGAAAAAAACTTCAAAATGTAGAGGGAATTCAATAGAGAGAGCAGTGAATGCTTGGAGGTGTTTCTTCTTTCTTGTCATATACAATCGAAAAAAAGGGCATGACACCAGCCTGTTTTTGCAATGACAATAAGAAGTAAGGTAAAAAGCTTTGGTTTTAAGGCCAGCACTCACACCAAATTCTTGATGAAAGACTGTGAACTTGACAGGGAAGCCAAGAAAAAACGAAAGGGTCAGTTAGCACTACAGGGACAGCAGGCAGTGCATGCTCCCCAAAGCTGGAAAGCTGAGCACGCTGGCTTTTTCTTGTTTATTTTTTCTCCCTTCTTTCATTCTCAACCCTTTGAGTTTTAAGAACAATGACCTGTGGAAACACTTCTGTGATCCTCCTTGGGAACACAGTCATGGAAGCTGCACCCTCTTTCAGGAAGCTCTTTATTCTGCAGCAACATGAATCAGTACAAATTTGAACATGTCCTAAGTCAGCACCCTCCCAGGTTCCACCCAGCCTGGCTGCTGGTTTGGTGAGCTCCATATGCTACACAGCCCAGCTTTCATGTCACATCCTCATTTGTGTTATTCTTGCAG
Seq C2 exon
TCAATGCAAAGTGTCATGCTACCCACTGCATTGGGGAACTTGAAAGGAGCAGCAGCAATAACAGCAGCAGCAGCAGCAGCAGGAATGAGTGCAGAGGAAGCTGCAGCAGGAGGAAGCAGTTCTGCCTCTAACATAAGAGGGCAGAGCAACACGATTACCAGTGAAGTATGGGAAGAGCAAAGACATCTCCTTCCTACTGCTGATTACCATACCAGATCCATAGCAACTGGAAGGGCTGAAGGCATGATATCTGGAGAAGGCAACGTGGTGACTGGAGGAGGCGTGGCAATGGAATCTACAGGAGCCATGAATGAAGAATTTTTAAGAGACTACTTCACTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015142:ENSGALT00000024433:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.272
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0104912=Cadherin_C=PU(30.5=25.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACTGCTGTTGTGTCCATGCG
R:
CAGCCCTTCCAGTTGCTATGG
Band lengths:
354-1452
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]