RnoINT0057501 @ rn6
Intron Retention
Gene
ENSRNOG00000012613 | F13b
Description
coagulation factor XIII B chain [Source:RGD Symbol;Acc:1311668]
Coordinates
chr13:56601649-56603703:+
Coord C1 exon
chr13:56601649-56601849
Coord A exon
chr13:56601850-56603517
Coord C2 exon
chr13:56603518-56603703
Length
1668 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CATTTACTTTTACAACACAGAAA
3' ss Score
4.16
Exon sequences
Seq C1 exon
AGAAACAGTGTGATTTTCCTGCCGTGGAAAATGGAAGAATTGCCCAATATTATTATACGTTTAAAAGCTATTACTTCCCCATGAGCATAGACAAAAAACTATCATTCTTCTGTTTGGCTGGCTATGCAACCGAAAGTGGGAAGCAAGAAGAGAAAATCAGGTGTACAGCGGAAGGCTGGTCTCCAAAACCAAGGTGCTACA
Seq A exon
GTAAGTCAGTGCATGGTGCCAGCTCAATTATTACAGAGTGGTTTCTGGGAAAAGAATATTTGTTTATATTAAATGTGAAGAGCGATTACACTTTATATCCATACGTAACAACAAAAATACCGTTATATAATGCCATACATAAAATTCTGTAAATGAGATTGCTATACCAGTAAGTCGTTTTATTTGCTTTTTATAGTACCTGTGAAGAAATACCTAAAAATGTACATCAAAATAGCTAAGGAGGCACACCTGGGTTACTTTAAGTAAGGCAGGACTTATATTCACCATCTTTAATAGGAAGCCAGAATAAGAGATTTTCTTTTACAGGATGAGCCTTTCTAATGTTTTTTTGTGTATATTTGTCACTCATCTGTGTGGCTACTTTTCTTTCTGCTACTCACTGAAAGCTGAAGGTTTGTGCACGCTGACTTCAGCTAAGTAAATAGCATCATACCGGGTTCACTTCATTGCTTCCTTGCATCACATGTTACATTATCGCTGGTTTCCCTGTACCTAGGTGAAATGTCTTGAGCCCCCAGAATTCCTGTTTTCCAGTTAAAAGGCTCCCATTAAGTCCTTTCCATTTAAAAGAGACATTTTGGTATGGTAGTAGCTGTGGTCGAGACACCTAGTAAGCATAACTGCGTAAGAATCATTCATACTGTGACTTCAGGACAGACCAGAATATTTTATAACAGTTATAAGATAAATGCCATTCTAACGTCATAGAAAGAAGTCACATGCCTTGAACTTACTATCTTAAGAGACAGAAAATTGCAGAGATTGGCATGGGAGCATAGTCGTCAAGACAGAATCTCTTCGGACAGCTGACTGCATGTGGTCTCACCACCACCCCTGTGAAAGTGATGTGAAAATTCTTAGTCTGTTTCTTATGCACAAAATGGAGTAGGAACTTTGACATAGAGCCACACAGCTAGCACTAGATGTGTTTGTGGTAATATAAACATATTGGACAAATCTCTAAACCCTTCAAGATTGCTTTGTCAAAAAGTTCCAATAATATGACTTAAAAGTGTAGGTTGACGAATGCGAAGGTAATTTTCTTATGTGTCCCTCACTACTGCACATATTGATCACAAACTTGATTGCAGACTCAAAGGTTTCCAGCCGCATATGTATGACTTAGTAAGTCCACATACACTTACTCCTGGATCCCAAAAATATTTTCTAGAACAATGAATGAAGATTTCACAGTAAGTTACCTTAGCATTATTTAATGATCCATTAAGGATGCTTTTGATTACATTATAAGACAATGGAACAATACATCACGTAGGACAAGAAGAAATTACTTTTACTTGTGATTACTGACAACTAGTGAAAAGCTGTTAGTGTATTTTCCAAAAGAAGATGTGGGAGTATCTAAGGAAATTAAAAATTGTAGATGCAAAAACAGTTGATGTTAACCTGAATCCATTTCCAATGAAATTTCATGCAGAGCATGTGAGATATTTCCAAAATTAAACCAAATCAATGAATTTTGATGTAAAAACTATTTTGCTCCTCAAAATTCCAACTAAGAGTAACAATATGTGTTTTGGTTCATTTTTCAGTTTAGTGAAGTACATATAATACTAATTTTATTAGTCAACAGATAGACATTGTAATTTCATCATGAAACAAAGCACATTTACTTTTACAACACAG
Seq C2 exon
AAAAATGCCTGAAGCCTGTCTTAAGGAATGGCTATGTCTCTGATGGCAAAGTACTATACAAAATTCAAGAGAATATGCGTTACGGTTGCACTTCAGGATACAAAACGACTGGGGGAAAGGATGAAGAAGTGGTCCAGTGTCTTTCTGAAGGGTGGTCTTCTCAACCGTCCTGCAGGAAAGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012613:ENSRNOT00000016944:2
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=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=92.6)
A:
NA
C2:
PF0008415=Sushi=WD(100=88.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCCGTGGAAAATGGAAGA
R:
ACGGTTGAGAAGACCACCCTT
Band lengths:
352-2020
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]