GgaINT0112304 @ galGal3
Intron Retention
Gene
ENSGALG00000017006 | F1N8V8_CHICK
Description
NA
Coordinates
chr1:173510692-173512886:+
Coord C1 exon
chr1:173510692-173511258
Coord A exon
chr1:173511259-173512766
Coord C2 exon
chr1:173512767-173512886
Length
1508 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
GCTTCACTTTTATTTTCTAGGTC
3' ss Score
10.7
Exon sequences
Seq C1 exon
CAAAAAGGAGAAGATTGAAAAATCAGATTCAGAGAGTGAGGAAGCATCGAGTGAAATTCAACGTGTACCTTTAAATCCCCGCTATCGGATCCACAAGTGCTCCAGTGCATGTCTCTCCAACAGAGCAGTAAGCTCCTACAAGGGTGAAAATCCTCTTAAGATACCAATACTGTTTCACTTTCAAAGACGCCATGCGAAAGCAGACTGCCTTTCAAAATCACTGGATGTGCATTATAAAGCTCCCTGTGGCAGAAGTCTGAGAAGTTTTCAAGATGTTCAAAGTTATTTGTTTGAGACAAAATGTGATTTCTTATTTATTGATCACTTCTCTTTTAACACATACGTCCTGTTGGGCAGGAACACTGTAAATCCAGAACCCCTTGTATTTGATCTTGATATCAGCAATGGAGCTGAATCTGTGCCTATTTCCTTCTGTAATGACATTGACCGTGCCAGATTACCTTATTTTAAATACCGGAGGGCATCGTGGCCTCGTGGATATTATCTCAACAATTTATCCAGCACTTTTCTTGATTCATGTGACTGCACGGATGGCTGCATTGATAG
Seq A exon
GTAAGTAGAAGAATCTAATCCCAGACAAACTTTGCATAATGTGTCAGTATGAGGGTGGTGTTGGAGGTGTGAAGGTACACAATACCAAGCAGTGCCAAATGATGAAGGGACGTCTCTACATGGATATCTGCAGTAGCTGTCCTGTGCCACGGTTTGTGTTGACTGAAACCACTGTGTCTTTGTCTTCTGCTTGGGTACTCCTACCTACCCAGCCTCTGTTAAAGGGAAGGAAGCAAACAAGAGGTTGATTAGGATGTTCCTTTACCTTTATTCTCAAATATGCAATGCTTCTCCTTCAAGTGGAGGAGGAAAGCAGATCTCTTGGCTTTAAGAAAGGAGTGGGGAAGGGAGAGCATTGTGCTAGAAAAAGGCAGCTCATTTTTCTGGCAGGCAGGGAGGGTTTCTGTGTGATAACTGCTGCAGACCCCTCTGTGGGATGGTATCCCTCAGGGCTGGGATTTGACAGCCTAGAGAGGTCAGGTAGTTTGGGTCGTAGATTAATAAGGGCAGAGGAAGAGACCTTTTACAGTCTCTACATCCCATCCATCAACAAATGCTATGAAACACTGAGGTCTCACAAGACATTTATGTTCTGGACTGTTCCAAGTGGTGTTGCTCATTGATGTCGTCTTCTAAACCCTGCTAACTCTGGACTGTGTTTAACTCTGTGAGGAACTGCCACAGTTAATGTATGTGAGTTCAGTGATAGTTAGGCTGCTCACCTGAGGGGTATTTGTCTTTCACCTGGTCTTTGCCTGCAGGCATTAATCTTGGATTGAATATACTTTGTATATTTGATAGCTAGAGGACACGCTCATACTGCTGTGCAGTATAACTGCCTATGACCCTGCATATAGCTTGAAATAGAATAAGATTCAGTAACTCAGATTATTTAGTTTCAGTAGGGCAGTGGGGAACAGCGAGCACATAGCATGCTCCTTCTGTGTGTTGAACCTCACCAAGACCTGAGTTGCTTTCAGTGTGTGGTTTTAGGGGTTGATATTTGACTAATTACAGTGAGTCTTTGGAGCTGTCATGACTTAAGATAGTGAGGATCAGCATTACTGCTGGAGTTCTTCAATTGGCAGCGTGGAATTATTCAATTCCTAGGGCCTAGAGTGGGAGGAAAGTGATGAAGTAGTGGCTAACAGACTGGGATGCTGTGCCAGAACAAATGATTTTCTTTCCTTCCTTCAATCCATTTAACAGTGTCCTGTTGGTAACGATTTCTGTCACACGTCAACTGTGTGTGCCTTTGCAGAGGTTGGCAGAAGAATGGGGAATAAGGGAGACATTATTTTTGTAAGCACGCATAACCAGGCAAGAGACAAAGAGGAGGATGGGGTACCTGAAGTGACCTTTTGCAGCAAAGGTGGAAAAAAATAGAAAATAATGCATTTGTGTTTGTATATAGTCAAGTACATTTTAAATTATCTAGATTTAATTTTGATCTACTGTGCTCCAAATACGTTCTGATTTCTATACGGTGCTTCACTTTTATTTTCTAG
Seq C2 exon
GTCAAAGTGTGCATGTCTACAGCTAACTGCAAGAGGCTGCCGTAAAGTTTCTGTGTCTCCTAATGCTAAAATGTCTCGTGGATACAGTTACAAAAGACTGGAAGGGCCTGTTCCTAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000036477:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0142914=MBD=WD(100=36.8),PF0503311=Pre-SET=PU(49.1=30.0)
A:
NA
C2:
PF0503311=Pre-SET=FE(34.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACATACGTCCTGTTGGGC
R:
TAGGAACAGGCCCTTCCAGTC
Band lengths:
349-1857
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]