GgaINT0007915 @ galGal3
Intron Retention
Gene
ENSGALG00000002056 | Q5ZI44_CHICK
Description
NA
Coordinates
chr15:1286517-1288928:+
Coord C1 exon
chr15:1286517-1286621
Coord A exon
chr15:1286622-1286730
Coord C2 exon
chr15:1286731-1288928
Length
109 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
CTACCTTTATGTTGTTCCAGGAC
3' ss Score
9.66
Exon sequences
Seq C1 exon
TCAGTTACCTGACCCTGCAATTGAAGACCAAGGGAAGGAATACATACGTCCTATATTGAACAAGTATGCAGCTGTGTGTGTTCGTTGCCCGGGTTATGGAACAAG
Seq A exon
GTAAAATTTCCTGCTGGACCAAAATATATCTCAATTCAAATGCATGTTGCCACAAATGTTAACTCTTTACTGAGTGCTTTATATTTCTTCTACCTTTATGTTGTTCCAG
Seq C2 exon
GACAAACACAGTCCTCCTCATTGATTCAGAAGGAAACGTTACTTTCACAGAGCGCACCATGATCAATGAGGATGTCAGCCAGTGGAAAACAAGCAGCTATGAATTCAAACTGCACATGTAACAACTTTCCATTTGAATGCATTGTAATAAAAGCAATGAAAGCAAGCTGTTAAGCTCCAGGAAATGTTTTCTGTCAGCCTCTGGAAGCCAAAAATAGCAAGAGAAGCAAAAGTTGTTTTAAATAGGTTGTGTAAGCTATCAATCTCACAAATCCTCTGCATAAAACAAGTTTCTTACTGTTTTTACATTAAGTTGCAACTTCAAAACAAATTTCTGTCCATATGGCTTTGTTTTATCATCTAAGCTTAAAAAATTGTAAAACCCAGTGGAAAATACTAACAGGATACTGTACCTTGCATATAACTTCTTTATTTTTATTTCAGCCAGAGCTGAAAATATATGCAGCTTCTTGGAGAATCGACCTTCAGCTAACTTTCACAATCTAAATTTTGTCTAAAAATTAGATTTGTATCATGGAATTGAAAGAAAATCAGCTGCAGTTCCATTTCTTTTCACAGATTCCTCTAATTTCTTTTCGCTCAGATACAACCACGTACTGTATGATGCCTGAAGCCAATGTCTAGCAGTCATAGAACATAAGATCAGAGGGATCGTGAAGCCACCTGGCATATAACACCTGCTTCCAGGGCAAGGCTGCCTTTGTCCAACATGCAAGTCATTGCTTTGTTTTTTCTTTTAAGTATGTTTTAAAGAAATACCAAACTTGTATTCAATTCAGAGGAGGAGAAATGCTTACTGCTTTTGTTTTGTTTTTTTTTTTTACAAAACTGCTCTCCCTTCAATATGTAATTTTAAGATTGTAAGCTGATGCCAATATACATTAAATGAATGTATGTTTTCTTTGTAGCATTAAGTGTTTTAGTAATATTTAAACTTTTCCCTATGCCATGGTACACTGTTCTGCCTGGAGAGGGTGGGGAGGGAAGAATTTGTTTTGTTTACCTGTAAATAGTACAGCAATAGATCTTAAATACTCTCAAATCTAGTTTTAGAACTAAGAAATTAAGTTGTCACTGCTCAGTTCTATTCAGTAGAAGTTTAAAGTTGTTTATCTTTGAAAGGAATAAAATTCTGTACTGTGACATCTGGTTTCCTGATAATCTCATTAGCAATATTGTTTTTTTTTTTTCCTACCCCACCAGGCAGATAAGGAGTAATTATGCTTGCAAATGGACACTGAATGTGAGGTTACAGTAACTTGAGACAGCCTTAGTGATCTGCATACCTGGACATTGCAGTGGAGGTGAAATTTGTAGTAATCTATTTATAATTTCAAAGAAATCAATGGAGAATTCAGAACCACCTCTAGAATGGAATATCTGTTGTAATGTAACTTTTTTCAACCATGCTAAAAAGGTCATGCTACAGAATTCTTTATTTAATGTCTTGTTTAAGAGTGTATGTCTTTAAAAGTGGTCATACCACAAGGTTTGGGAGGGGAGCAAACAGACAAAAACCCTAGCAAATAGGGCTGTGAAGTTGATGTGTCTTCAGTGTCTTCACTGGAAGCAGTAGGTAGTGTCTTCAGTGGAAGCAGTAGGATTAACAGGCAAGTAAAAAGGAATAACCACCATGTTCTGAGTAGCTTTGATAAAATGCCACTTCGTTCAACATGCATTTTGTTTCCATCTCATTCTGTGATTGATATTCTTTGGCTTTACTAATGAGTATGAATTATCACAGTACTTACTAAAACTTTGCTTTATTTGCCCTATTAAATACATAAGTCTCCCAGGAAAACCTTGATTTATATTCAAGCATTATAAAAGTCCGTGTGAAGCTCTGATCTCTCTCCTGGAGAGTTGAAGCTAGAAGTGACATTCGGCGATGATGTATTTTGTGGTTTTTCTTTGTTTTTAAATCTAAAGAAAAGCCTTGGACATGGATTTAAGATCTTCTACTGAGGATGCAATTATTAGATGTGTGCAATTTGAACTCCATTAAATTATTTTGGATAGCATAAAAATAATTGTTATGAAAATAATTTATGCAATGTCCATGGTTGTCTACTAAAATTAATATGAAATGTAATGATACTGTATACTTGGTCTCTGCAATTATGATTATGTAACTGACTTACAAAATACTTCAAGCAAATATATAAGCTGGCCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002056:ENSGALT00000003199:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057427=NRDE=FE(12.9=100)
A:
NA
C2:
PF057427=NRDE=PD(12.9=85.4)
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:
ATGCAGCTGTGTGTGTTCGTT
R:
GCTTCCAGAGGCTGACAGAAA
Band lengths:
248-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]