GgaINT0042707 @ galGal3
Intron Retention
Gene
ENSGALG00000005156 | F1NVZ2_CHICK
Description
NA
Coordinates
chr6:16992038-16994795:-
Coord C1 exon
chr6:16994515-16994795
Coord A exon
chr6:16992691-16994514
Coord C2 exon
chr6:16992038-16992690
Length
1824 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GCTGGTCTGTTCTGTTCCAGGGA
3' ss Score
9.62
Exon sequences
Seq C1 exon
GTTTGGTGTTGATGTGCGGCGCTACCTGCTGCGGGTAGGTGACTACCACACAGGTGTGAAGGATGAGTTTGAGAGAGAGCTGCCCGTGGAGCGAATTGTCCTCCACAGGAACTACTGGGCTGGCAGCAATGATAATGATATTGCCCTGGTCCGAATGCGAGGCAGAGAGGGGCACTGTCTCTCCTTCAATAGCCACGTTCTGCCTATCTGTCTTCCTGATAGGAAAGAGAAGTCTGACATAAACAGGCAAGCCTGCATCATCTCTGGCTGGGGAGACACAG
Seq A exon
GTAAGTAACAAAGCTCTGAGGAGCAAGATAATGATAGGGAGAATCTGGACTGAGGAATCTATATGCACCATTATTTTATGTCTGCTCAATTCAAGGCCATGTTTTTAATGCTTCTATTATTTGTGGCAAGTGCACAGTATCAAGGAACAGGCAATAAAGTAATTTTTGTGCCACTGTTTTCTTCTGATATTTGAGGTTGTCTTGAAGCCTGTTCATGATGGAAGTTTTGGTTGCTATAGCAATCTTCTGAAGCTGTGAAGGAGAGGAATGCTGCCAGCTGATCACAGTTCTCTCCTCCTCTCCCCTTTCAACATGCATGTTTGCCCACAGCAGAGCCCTTAGGCAATGACTTGTGCAGAGCTGATGCACAAAATCTGTATATTGTTCAGGGAGGTCCCCATGTTTCTGTGGTCTCCTGCCTTCTTTATAGTATCACAGTAGTAAAGTGGGGGCTTAGCAGTGGAAGGAGTCTTCCTCATAAACCTTGCCTGTAAAGAGCATGTACTTGGGGAGTGACCTGAGACAAAGTGCTCTTCCTGTACAGTAGGTGACCTTTCTTGAAGTCTGGCCACTGTGATGAACCTCTCTGGATATTGCTCCAGGGACAGCTGGGCTCTGACACTGGTTTCTGCATGAGCTTTGAGACAACCTGTACGTCCCATTTGCACAGCATTACTCTGAAACTTCTAGGTTAAAGAGAGCAGGGAGTATTCTAGAAAGTATTAATGACTAAACTGTAAACACTATCAAGGCAGTGTTTTAAAATGCTGAGCTTGGTGGAGTTCTGAAATGGATGCATTAGTCTGGAGACAGCTTTAAGCTCTAAGTACGATGTTGTGACCAGTTGTGCAGTCCTTCCCTATTTGAGGTTCATAGATGCAAAGCAGGACTTAAGGAAAGGAGGCCTTTCTGGGCTGCTGTGACTGGGGAAAATCCATATGTTCAGAAAGACTTGCTGCCAAAACACAAATAGCCCCAGGAGTTTTTCTGTTGTTTTTGGACTTAATCATCCTTTCCAGCTGTTTCTCTAGCTGTTACTCAAGTGTTTGATTGAAAATATAGATTTGCCTTTGAAGTCAGTTATACCAGGTGCACATGTCACTTTGGGGTGTCTGCAGAGGATCAAGGAACAATTTAGCCACGTAACTCCCTTAAGCTGTAATGGGACTTAATGGCTAGAATCTCTCCCCCACACCAAACCCATCTTTCCAAATGAGTTAACGACTACCTTGTGAACTTACTGTAAGTCTATAAATTACTTTAAACCTTGAGCACCATAAGTTTGCACTCTAACATGCAGACCTTAAATTCTGATCAAGTCTGTAGTAACCAAGATTTGAGCAAATACATTTAAGTCTGGCCAAAGATGAAGTAAGCTCCCTTTGAATAATATTTGGATGCTTCTGAAATGTGTTCCAAAACTTCTCTGAGGACTGAGCATTTCACAGATGTTACTGCATTTATTCCTTTGTGAAAACACTGTCATTTTAGAGAGAAAGAAATGAAGACTCAAAGAGGTGAAATAAGCTGAACAAAGTTCAAGTTACTTGTTGGCAGAACCAGGAGTAAGACTCATCCTTTGATCTAACCCCTTTCTCCAACCTCTTCCCTGCTTCTTTGATCTTACAGCTCTTTTTTGTGGTCTGATTTTGCAGTACTGTTCTCTGAAGTTCTGGTCGTTCAGAGGGGCTGAGTTTGGCCTAATTCTGTGCCACAGTCTTCATGTGAAATGTACAAGTATCTGTTTTTGTGCAGAGAACTGTTACTTCAGGTTGCTGCTGTTGTCTGTATGTGAATTGGTTTAGCTGGTCTGTTCTGTTCCAG
Seq C2 exon
GGAAGTCTTATTCAAGAACACTACTGCAGGGGGTGGTGCCTCTTCTGCCACGGGAAGACTGTGAGGTTCGCTATGGGCAGAAGTTCACAAACCGTATGATATGTGCTGGGAACCTCTCTGAAGATAAACGAGTGGACAGCTGCCAGGGTGACAGTGGAGGGCCACTCATGTGTCAGAAGTCAAATGGACGCTGGATTATTTTGGGTATCACTTCCTGGGGTTATGGTTGTGGTCGGAAGGATTCCCCTGGTGTGTACACAAAGGTCAGCAGATACGTACCCTGGATCAAGAAAGTGACTAAGCTAAAATGAAAATGTCTGAGCCCCAGGAACTTCAACGTGTTGTCCTTCTCCCTGCAGCAGCTGAAGGCTGTGGCTTCTGGCCTGTGACTGGTGGAAATGTATGTTGTCATTTGGACACTGGGAAAATAATTTAACGTGGAACTGGGAGAAAAACAGCTGTGGTTGATACTTTGGTCTCACTTTAGTTCTTAATCTCTGAGCAGACAAAGCAAGTGCACACTGGTAGGACAAATTAGCCTGTGTTGCTCTGACTGTCCGAGTCCTGTAATGCAATCAATGCTTATTCCTTTGGCCCAAAACACAGAAATGGTAGAAATGAAAATATGCCTGTCTCTGTAAATCTGTTCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005156:ENSGALT00000008280:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(39.3=100)
A:
NA
C2:
PF0008921=Trypsin=PD(39.7=91.3)
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:
ATCATCTCTGGCTGGGGAGAC
R:
AGTTCCTGGGGCTCAGACATT
Band lengths:
358-2182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]