GgaINT0119259 @ galGal3
Intron Retention
Gene
ENSGALG00000015389 | E1C7W0_CHICK
Description
NA
Coordinates
chr1:91911210-91913051:+
Coord C1 exon
chr1:91911210-91911326
Coord A exon
chr1:91911327-91912873
Coord C2 exon
chr1:91912874-91913051
Length
1547 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGT
5' ss Score
9.9
3' ss Seq
ACCTGAAATACCCCTTGCAGGTT
3' ss Score
7.35
Exon sequences
Seq C1 exon
GTATTCCTTGCACCAACCACACATTTAAGTGCAGGAATAACGTATGCATTAAGAAACAAAATGCAAAATGTGATGGGACTGTGGATTGTACTGATGGAAGTGATGAAAGCAGTTGTC
Seq A exon
GTAAGTCCCTCCTGCTGCTTTGTACTTTTAACATTTTCCATTTTAAAGCCCTTTATTTCTTCGTCTTTTAGAGTACGTATTACTCATGCAGCATGCAGTGAGTTTTTTACTGTATCTACTTGGTGATAGTGGAACAGCAGTCAGCTAACAGTTTACGTCAGGTCTGGCTGCGGTATCTGTGGGAGGTGTGGTTCACAGGTATGGGAAGTTTCAGCTGTAATGCTTATTGCAGCTAGTTTAAGGAGCAGAGAAGCAGGGGTAACTGCAGGATGAACTTGGCCAGTTGGTAAGCAGTATTCTTACTGCTGGAGCAGAGTCAAGTGTTTCTGTTGGAGAGTGTATTGAGACTGAAGGAGTGACACAGGTGAAGTGTGAAACAAAAATGTTTAACTGTTTAACTTCTCTGTCTCGTGGTGGGGAAGGCCTCAATATTTCATAGCATCAGTCTAGATTCTAGTCTCAAACCTTTCTAAAGAAATCTCCACACAAGCTTTTTGCTCATTTTGTTATAAAATAGACAGGTGATTCTTACTGCTGTAGGAATGAAAATGGGATAGGATTCACTTGCTTTAAGTGGATGTCCTATAGTATTTTTTCTGGCCTTCAGCTGTTCCTGCCACAGTATCTGTATGTCAAACCTGCCAGCACCTGCCTTGGATGCAGTATGACATCTTAACAAACCATGTGCCTCCTTTTTATTTTGGAAACAATAATGCTGCTCTTGATTCTTTGATTGGATGCTGGGAAGTGCTGGTATCGGTCTGTGGGAGCATGGGACTAAAACTGCTGAGCAGAGGCTTTATATGTGCACACAAGAGAAGAAGCACAAGGTCCTACAGAGGGGTCTTTCTCCATTGCTCTTTGAATTAGTGCGAAGCTTTTTGTGCTAAGGTATGACTTACTTCTGAGTTAGTAATATACAACACTTTCAGACTTTCAGTTGTCTCCAAGCAAAGCAATTATTGGACCACTTGGTTTCTGAGGTATTAGATGACCAAACTACACCTACGTAGCTAGTACTGTAAATGCACCATTCCCACTGTTTTTGCTGGAAATAAGTGTATAGGTGCTACTGAACTTACTTCCCACCAGAAGGACTCCTTTCAGGTCAGGACTAATAGTAGGAGAAAGAGATGAAGGGTTGTCTGCTTTAGCATATTAATTGTGCTGCTTGTTAAATCAATGGATCCTCTGACATTTCTAACACAAGAAAGACTGAAGCCAACTTCTGTGGCGGAGCTAGAAAAGAAACTTACCTTAACCATGCCAGTGCCTTTATCATGGTGCCACCTCTTGTTTCAGGAACAGTATTGAATATAGGAGTTTTCTGATTAAAGCAGGATAAGGAAATGAACTTCAAATAATGTTGTACTTTAATATGTTTTGTAGAGTACCTGCTTTAGCAGAGGAATTGGACTTGATGATCTCTTGAGGTCTCTTCCAACTTTTGCAATTCTGTGATTATTTCATACCATATGTGGGAAGCGTTCTCCTTAAAGGGAAGCACATGGGATAGAGAAGACAGTAACCTGAAATACCCCTTGCAG
Seq C2 exon
GTTGCGGCAGCAGCAAGAATGGCAATCTCATCTCTCGGATCGTGGGTGGTACCAACAGTAAGGAAGGTGAATGGCCCTGGCAGGTCAGCCTCCATTTTGTGGGAGCTGCATACTGTGGGGCATCAGTGATATCAAAAGAATGGCTTGTATCTGCAGCTCACTGCTTTCAAGGGAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015389:ENSGALT00000024825:14
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:
PF0005713=Ldl_recept_a=WD(100=92.5)
A:
NA
C2:
PF0008921=Trypsin=PU(20.0=76.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATTCCTTGCACCAACCACAC
R:
TGCTCCCTTGAAAGCAGTGAG
Band lengths:
294-1841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]