GgaINT0047680 @ galGal3
Intron Retention
Gene
ENSGALG00000010943 | E1C4S3_CHICK
Description
NA
Coordinates
chr7:21123641-21125339:+
Coord C1 exon
chr7:21123641-21123778
Coord A exon
chr7:21123779-21125234
Coord C2 exon
chr7:21125235-21125339
Length
1456 bp
Sequences
Splice sites
5' ss Seq
AAGATAAGT
5' ss Score
2.82
3' ss Seq
CTTTGATTTTATGTTTTTACTTT
3' ss Score
-0.01
Exon sequences
Seq C1 exon
GTGTTACAGCAACCCAAGTATGAAGACAACCTGTACATGTATTTGTATTTTGTCATCTTTATCATTTTTGGGTCTTTTTTCACCCTGAATCTGTTCATTGGTGTCATCATTGATAACTTCAATCAGCAGAAAAAGAAG
Seq A exon
ATAAGTATTGTTTCATTCCTCTTCTAAAGATATTGCGAAATAGTGACTTCCTGTAAGTGCATGATGTATGGAATGTATCAAAACTGAAAAAGCTGAAGAATACCAGAATATAAAATCTTACCCAGATGTTGCATACATTATCTTCATAAGATTTTACACTGTAGTGAACAGTACACACCTTTCTCCTTTCTGTTTTCAATTCTCCCAAATTCTATTCTGTGGCACTGAATTAAATAGTTATTTGTAACCATTGTAGGTTACAAAGGATACCCGTTCTTACTTTCATAGTGTAGCTGTGAATCTCACTGACATGGATGGTCTGAGTATCAGCTGCTTATCTTTAAAGCCAACTTATCAAATAAATGCTTATATTGCAGACACTGAGATTTGATAACTAAGAGATCTTCTTCAATTCAGTCATTTTGATTTTCAGGAAATTCCTGTCTACATCAAAATACTCTGTTTTCCAGGTTTCATTTGAAATTAATATGCAGCTCTTACTCAGAATATTTTTTTATATTTACCTCTCTTAATGTGTTAATTCTGTGAACACATTAAGGTTAGTTTATGTCAAGCAACAGGACCTAGATTACATTTTCTGTCAGTTCTATAAATTATAGGTACTTTAGTTATTGCTTGAACCTTTAATGTTACTCATCTGCAGTATTTCCATATGATGAGAAACTAAGCCAATACAAGATCTATAGAATCAGTTAGGACTCAAGTTGAGTATACACCTAATATTTATCAAATGAATGCAAAGGCTTTTTTTATGCAGAAGAAAGAACGATCATTTGGATCATTTGCATATCAACACTACTGTATACATAACTAAAATAAGTGCAATAACATGTACTTTATCTTTACACTGATTTTAGAAGACGGGCAGTCCCAGAACACCAATGAACATCGTCTGTCTTTGAAAATATTTGTGCCATTTGAATTTTCTGGAAGAAGAAACAAACATGCATGCACAATGTTTACTAGCACAAATTCTCCTTACCATTTTTCATCAATAATAGTATTGAATTCTCAGAAACTTTTGTCTGATCGCTGCTTCACCAAGTATAGCTTAGTATGGCAGTTAGTTTTCTCAAGCCATTGAAGCTGGCCATCCCATTTTCTTTCAACTTTCTGTTGACTCTAATATAAAAATGCCAGTAATCCTTGCCCAGATTCTTGAAGGGATATCCACGCTGCCTAACAAACTCTGGATTCTCTGAAGATGTTATAATTTCACATGAAAGAAAGTTAGCGGGGAATAGTGTAAGGTAAAAACATCCATTTTCTCACTGGATTTACTGTCATTTCTCCTGGAGTATTTGGTGCATTTTAACAAGACAATCAGAATAACACATATATAGTAAATAAATGTATTAATCACATTTCACTTTAAAAGCTTTTTCAACACTGCATATAAATGTGATTGTAACCAGCTTTGATTTTATGTTTTTAC
Seq C2 exon
TTTGGAGGTCAAGACATATTTATGACAGAAGAGCAGAAGAAATACTACAATGCAATGAAAAAGCTGGGATCCAAAAAACCACAAAAGCCTATACCAAGACCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943:ENSGALT00000017814:23
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:
PF0052026=Ion_trans=PD(15.3=76.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCAACCCAAGTATGAAGACA
R:
CCCTGGTCTTGGTATAGGCTT
Band lengths:
238-1694
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]