GgaINT0047602 @ galGal3
Intron Retention
Gene
ENSGALG00000012547 | F1NC97_CHICK
Description
NA
Coordinates
chr7:37873036-37875325:-
Coord C1 exon
chr7:37875080-37875325
Coord A exon
chr7:37873267-37875079
Coord C2 exon
chr7:37873036-37873266
Length
1813 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
GTGCTCTCCTTTTGAACCAGGCT
3' ss Score
7.16
Exon sequences
Seq C1 exon
CCTCCGAGTCCCCCAGCCGTGCTGCCGTGGGTCCCGTGGTGCTGGCAGTGACAGTGGCCGTGCCCATCTGCGTTCTGTCCCTCGTGGCAGTGCTGGCTGCCTGCATCTGCCAGGGCCGGCGCTGCGCCCGCGGCAGGACGAAGCCGCCCAACGTGGAGGAGCCGCTCTCCGAGTGCAACCTGGTCAGCTCGGGCAAGACGCTCAAGGACCTCATTTATGACATGACGACGTCTGGCTCTGGCTCTG
Seq A exon
GTATGTGGGCATCTGTGTGCGCTGCGTCTCCAACCCACCGGCATCTGTCCTGCATCTGGGCCATAGGATCACAGAATCGCTCCAGGTTGCCCGGGGCAGTGTGGGTGCCCCATCCCTGCAGGTGCCCGAGACCATTGGTGGGGCCCAGGGCAGCCTGAGCTGCTGGGGGTTGGAACTGGATCATCTTTGAGGTCCTATCCGACCTAACCTTCCTCCAATACTTGAAGGGAGCATATAAACAGGAGGGAGAATGGCTGTTTACGAGGGTGAACAGTGATAGGACAAAGGGGAATGGTTTTAAACTGAGACAGGGGAGGTGTAGATTGGATATTAGGAGGAAGATTTTCCCCCAGAGGGTGGTGACGCACTGAACAGGCTGCCCAAGGAGGCTGTGGATGCCCCATCCCTGCAGGCATTCAAGGCCAGGCTGGATGTGGCTCTGGGCAGCCTGGGCTGCTGGTTGGCGACCCTGCACATAGCAGGGGGTTGGAACCGGATGAGCACTGTGGGCCTTTTCAACCCAGGCCATTCTATGATTCTGTGATTCTAAGCCATTCTATGGTTCTGTGATTAAGGTTAGAGAAGGTCATTAAGATCACCTGGTCCCACTGCAAAACCACCCCTGCAGGCCTTTGGGGCCATCAGGATCCCTGAACCATCGGGTTTGGAAGGGAGCTCTGGAGATCCCCTGGTGCGGGTTCCTGAAGCAGCTTCCAAGCACTGGCAGTGCTCGTGCCAAGTTCCCTGAGTGTGGGCACTGCGAGTCCTGTGCTGAGCATGGGCTGCATGTGGAGGGAGGGCAGCAGGGCTTTGGTGGGTGGTATTGTCAGGTAACCAAGCTCAATCCCTTGTTCTGGTGCAGAAGTTAATACAAGGTGATTCAGGTGTCTGCTGCCAGTGCTAATGGAGGCATTACTGCTGATGTGGCTGGCTGCAGAGCTGGGTGAGTCAGAGAGATGCTCCCAGCATCTTCCCTAAGGCACCAGGATACCATTACTGCACACACTTCTCTGGAGCAGAATCCCAGTCTTTGTAATGTTGTCCCCTTCTTATATCCTGCCTGCTCTGCTGTTACTGAGGACGCGCTAAATCGGTGAATCACAAACCCCTGAGTTCCAGTTCATCACCTTGGTGGCACGTCTGGCGTGTGTGACCCCATTTGCTGTAACTAGAATTTTTGTTTATCTGAAAAGATACATGTATTGTGCTTAATCTTATTAATGGGTGAAAAATATGCAAAGGGTGCTGAGTTTAGTTGGCCGTATTTTCCATGCCTGACTGAGGCATGGCCCAGCAGGAAACCGGGAGCACATGCAGAGCTCCGTGTGCGTGAAAATGATGCACTATCCAGAGGAGTACACATCAGAGACCACGTGCAGGTCGGATGTAATTCATTCTGATGGCTTTTGCATTCCCAGCAGACACGGGCAGCGCTGCCTGCATAGGGACAAAGCGTGGGTACGTGTGCTCCAAGGGAGGAAAATGCTGTTGTTGTTGGTATTTCACAGCTCCTGGGGATATGGCCCAGCTCTGGGAGGTGGATGTCACCCAGAGCAGCTGTGTACGCCCGGGCTGAGCCCGCTGTGTGCGCTCTGTGCTGCAGGGCAGGGCTGTGTGGGCTGCACTGGGTGCAGGGTGGCCTCTGCTGTCTGCTGTCCAGCAGTGGGCGATGTGCTCCACCTGGAAAGTAAAACACAGAACCTGATCTGGGGAAATGTTGCTCTCTGCCAACACACTGGCAGACCTCTGACTTCGGCCTTGGAAAGCTGCCGGGGAACTGTTTCACCAACGCTGTGCTCTCCTTTTGAACCAG
Seq C2 exon
GCTTACCTCTGCTCGTACAGAGAACCATTGCAAGGACTATCATTCTGCAGGAGATCGTAGGGAAGGGCCGCTTCGGGGAAGTGTGGCGTGGGAAGTGGTGCGGGGAGGACGTGGCTGTGAAAATCTTCTCCTCGAGAGACGAGCGGTCCTGGTTCCGGGAGGCAGAGATCTATCAGACGGTTATGCTGAGACACGAGAACATCCTGGGCTTCATTGCTGCTGATAACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012547:ENSGALT00000020491:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF085157=TGF_beta_GS=PU(58.6=20.5)
A:
NA
C2:
PF085157=TGF_beta_GS=PD(37.9=14.1),PF0006920=Pkinase=PU(22.2=82.1)
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:
CATCTGCGTTCTGTCCCTCG
R:
TAGATCTCTGCCTCCCGGAAC
Band lengths:
354-2167
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]