GgaINT0072468 @ galGal3
Intron Retention
Gene
ENSGALG00000009262 | FIBB_CHICK
Description
NA
Coordinates
chr4:21396280-21398059:+
Coord C1 exon
chr4:21396280-21396565
Coord A exon
chr4:21396566-21397457
Coord C2 exon
chr4:21397458-21398059
Length
892 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
TCCTGTTTTTACTTTATCAGGTT
3' ss Score
9.37
Exon sequences
Seq C1 exon
GTGAATATTGGCTTGGAAATGACAAAATCAGCCAACTTACCAAGATAGGACCCACAAAGGTTTTAATTGAAATGGAAGATTGGAATGGTGATAAAGTATCTGCTCTTTATGGAGGTTTCACCATACATAATGAAGGAAACAAATATCAGCTTTCTGTTAGTAACTACAAAGGCAATGCAGGCAATGCTCTGATGGAAGGAGCTTCACAGCTGTATGGAGAAAACAGGACAATGACAATTCACAATGGCATGTACTTCAGTACTTATGACAGAGACAATGATGGATG
Seq A exon
GTATGTACTTGCATTAGACATTTAAAAGAAATTACCAGACTGTATGTATCTGCTTAAAAAAAAGCCCACAGACTATTTCAACTAACTTGCTGTTAGTTTGCACAGCACTTTATAGTATCTTAAAATGTGTTTTCTTACTGTAAGTTACTAGCCAAGCCCCAATTCATCCTGTTCTGGTGCAGCTTAGGGCATAATGGGCATAGCCAAAGAGTTAAAACTATACTGTTAGTGCTGCTCTATTACAAAATAAGGAACAGGAATACTGAATTTTACTGATTCCAGGAATGATGTTCAGACTGATGCTTTGTCTATAACACAATATACTCATTATCAGAGCTTGATGGAGGTAGTGCTTAGGACTATTGTTTTGGTTAAGTAGGAATATTGGTACTCACTCCAGTAATACAGAGATGAGTCCTAAGGGGAGGCACAAATTATGATAAAAGTCCTGCCTACTCAGAAGACAGGAGCTCAGTTGTAGAAGACATATTTTAGATCTAAAGTGCTAAATTAAGTGTTAGGTCTATCTTAAAAATAGATTTGTTCAGATTTGAGAATACATACAATTGTCATTATTTCTAGTACCTTTAAATTATGATGATATTGCAATTATCATTATGAACTGAGGGAACTGTTGTTATCAACTGGTAAACTATAACGTCATTCCCAAAGAGACGCAACTAGAATTTTAACTATATCTATAAGCAGCTTCATTTGCAGGCACACAGCATAACACATGCTTGCAATAGTCAATCTTTTACAGAAAGTTTAGATAAGATTTTAAGTATTTGTTGTAGTTTGAAAGTTTCAGTACGGGGACACATATACACACTCCAGACCTATTTTCTTACAGTTCATCTGTGACTCTTATCTCCTGTTTTTACTTTATCAG
Seq C2 exon
GTTAACTACAGATCCAAGAAAACAGTGTTCCAAAGAAGATGGTGGTGGATGGTGGTACAATCGCTGCCATGCAGCCAACCCTAATGGCAGATACTACTGGGGAGGGACTTACAGCTGGGATATGGCAAAACATGGTACAGATGATGGTATTGTATGGATGAACTGGAAGGGGTCATGGTATTCAATGAAGAAGATGAGCATGAAAATCAAGCCATACTTCCCAGATTAATCATCAACATGTATAGAATCAGGGATCTTCTTTTCATATTTGTACCTTTTGTTTTTAGGTATGGTACTCAGCCTTGTCTTTGCATGTGAGAACCAAATATGCAGGTCCTACCATATAATGACCCAAAGTGAAACATGAAAACAACTGAAAATCAAAATCTGAACCATGAATATAAGCCATAAAGAGTATTTTGTTAATTTTTCATTTGTTCACAAGACAAAAGTACTGGTCTAGAATAAGGCTTAAGGCCAATAATATGTATAAAAATACAGCTGCTTCACTCTTTAACAAAGAAGTTGCATACCAAATCTGAAGAGGGAATGGATTACTGTAAAATGTTTTCTAAAAAATTAAATAAAGCCTTGAAACTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009262:ENSGALT00000038895:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.053
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(38.0=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(28.8=93.5)
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:
ACCAAGATAGGACCCACAAAGGT
R:
CCCTCCCCAGTAGTATCTGCC
Band lengths:
354-1246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]