GgaINT0045536 @ galGal3
Intron Retention
Gene
ENSGALG00000008818 | F1NPG2_CHICK
Description
NA
Coordinates
chr7:14893241-14895147:-
Coord C1 exon
chr7:14894856-14895147
Coord A exon
chr7:14893350-14894855
Coord C2 exon
chr7:14893241-14893349
Length
1506 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
ATCATGGCAATTTTTTTTAACAG
3' ss Score
-5.46
Exon sequences
Seq C1 exon
CTATGACTTGGGCATTGAGCATCGTGATGCTACAAATGATAAAGTGACTGTGGAAGCTGCTGAAGCCATAAAGAAATATCACGTTGGCATCAAGTGTGCCACCATCACTCCCGATGAGAAGAGAGTAGAAGAGTTCAAGTTGAAGCAGATGTGGAAGTCTCCTAATGGGACCATTAGGAACATCCTAGGTGGAACAGTCTTCAGGGAGGCTATTATCTGCAAGAACATCCCCCGATTGGTGTCCGGATGGGTGAAACCCATTGTCATTGGCCGTCATGCTTACGGGGATCAA
Seq A exon
GTGAGTCACTTCAGTGCTTACCTCTCTTATCTATCTGAACAGTCTTTGTCCTGAACTAGGACTCCCACCTGGAAGTAGCTACTCACTAGTACTTTATGCAGCACCAGGCAAGGAGTGGGAGAGCCTGTTTCATGCCTTTGTTCCTTAAACACTGCAGCTGTATAGACAGTATTTGTGAGCTGTGCTTAGATTACACAGGGATTTACCTAAACACGGGGTGAACCCACTCCTCTGAGTTGTTTTCCTCAATTCTGCAGAATCTTCCTCAAATGTTGTTCATAACAAAATCAGACATGAGCGATTTGTAGAAGTGAGGAAAGTTGCCTTGGTGTGTGGGTGGTGTTTTTTCTTACTTTTTTGAACTTGGATCTGTCTTCTAAACTTGGTATCAACAGCTGAGGTTTAGACAGCACTCCTACATGGTGTTCATAATGGACACATCAGGCTGTGGAATGAAACAGGGAAACTGCCATTGGTGGAGATAGCACACAGCCACAGGAAATGATCACATAGCACTCAGTGTAGTTGTCTTTGGGCAGTTTAGAGAACAAATATCAGCTATACTGCTCCCTGGGTAATGATGCCCTGCAAAGCAACCAAATATGACAGAAAGAGAGTCTTTCAAGAAGAGTGACTGTTTACTCAAATGAGTAAATCCAAAACAGAGGAAGAGTTGTAAGATAAGCTGGGATGGGATGGTAAAATAATAAGGATCAACACTGAAGGGGGAGGGGGAAGTGTGTGGTCCAGCACCTTTAGTAGTATTTAATAACCGAGAAGGTCAAATAATAATTAACAGTGGATTAAGGGGGAAGGATTAAAACCCTGCCAAAGTACAAGATTAAAACGAAAGGAATAAAGTACAGGACATATTAGCAAGACGCTTTTGTAACTTCAGGACACCGTAAGGAACAGATTATCTCAATAGGAAAGAGGCTACTTGGAAAAAGGATGACAGACTTGAAGGAAATATAACAGTAAATAGTACTGTTCAGGGTAGTTGGGAAAATGTGTAACAATTTATAGAACACCAAATTCTTATGACATCTGGAAAGCCAATCTGCACTACAGTGGGTAGAAGTAGTGGCTTTTGTTAAGATCCTCTAGGATTTAGTCTTACTCGTGAGATCAGTGGTTGTGACATGAATGGCTTAGAGGGAGGGGAAAGCTTTCTACTTAGAAGCCATGAAGCACTCTGAATACTTGGCACTTTAAAACTTCTGTGCATTTGCAGAAATATATGCTCATCCACTTGACAGAGCCCAAGAATCTGCAAGCATTTTCCCATGAAAGAGGATAATCATTTCTGACACAGGCAGACCCTTGGGTACTTCTTTTCCCTCTCCAGTAAGATAATCCAAGGACCACACGGCCAGTTTAAACAGAGCCTATTCAACAGATTGATTTATTGTAAATGCATCCCTGCACCTTATCCACCTTATCTTCATGGTTCTGTCCTCCTGATAGATAAAACTACCATAAAATTATCATGGCAATTTTTTTTAA
Seq C2 exon
CAGTACAGAGCAACCGATTTTGTGGTACCTGGGCCTGGAAAAGTAGAGATGACATACACTCCAGGAGATGGAGGCAAACCAGTCACCTATCTGGTCCATAACTTTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008818:ENSGALT00000014333:3
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=0.027
Domain overlap (PFAM):
C1:
PF0018015=Iso_dh=FE(24.6=100)
A:
NA
C2:
PF0018015=Iso_dh=FE(9.1=100)
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:
AAGTGACTGTGGAAGCTGCTG
R:
CCAGATAGGTGACTGGTTTGCC
Band lengths:
345-1851
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]