DreINT0166290 @ danRer10
Intron Retention
Gene
ENSDARG00000001760 | tnxb
Description
tenascin XB [Source:ZFIN;Acc:ZDB-GENE-070103-5]
Coordinates
chr16:16717859-16719600:-
Coord C1 exon
chr16:16719449-16719600
Coord A exon
chr16:16717956-16719448
Coord C2 exon
chr16:16717859-16717955
Length
1493 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
CTGTTGTTTTACAAATTCAGGTT
3' ss Score
8.51
Exon sequences
Seq C1 exon
CCCAGCTTCCACACCCATATCCCACAGACTGCTCAGAGGTGCAGATCAATGGGATGAAGGAGTCAGGAGAGGCTGAGATCTACCCTGAAGGGAAGAATGGAGAGCCGGTCAGGGTGTACTGTGACATGGAAACAGATGGAGGTGCCTGGACA
Seq A exon
GTAAGAAACAAAAGCCTGGATTACGCATTCTAAAAAATGGTGCTTAATAGCACTAAAAATCTTATTAATTTTAAGTTCTGCATACCTATATCTTTAAAGATGGTGCTATGTGTCATCTTAACCATCCCGAAGAACCACTGAAGTACTAATACTGGTACTGGATAGCACTGAAATTGGTTCCCCTATGATTATAAGCAGAAAAAACACTTCTTCCAAAGAACCACGATGTTAAGGACATCAACTACCACAAAGAACTGCTGAAGAATATTTTTTTATATATATAGTCATTGCTGTCCAGATTAAATTTACAGTGGCGCATGTATTACATGTCTGGATCTTTTAAATAGCCAAAAGTGTTTTTGTTAGCTTTTAAAATGCAGGCTTATTACAGGGTACAAACACTCATTTAGATGAGTCGTAAATGTCTTTTTGTCTTGTTTTATGCTTGAACTAAATGTCAATTGTCAACTGATTATATTTTAATTGCATTACAATATCATTGCTGTAAAAAGAAACTGTATACAATTGAAAAAAGTCACTTAGCTGTAAGTCATTTAACTCTTCACCGGAAGATCATCGGTATGGGAAGAAACACTAGCTCTGCATATACCCTATTACATTCTCTTCATGCTCTCAATTATATTCTCTACAGTATTGTTTCTAATATTTTTGATTTTTTTTTACCAATTCCACTATGACGTGACCATCACACAATTATTTTCATTGCAATAAAAAAACACTAATACGTTGACTGAATGAAATTAAATTAGTAAACTTGTTGCCTCAGTTTAATGATTAATAGAGTCTCCCAAAACTTGCATATTTAAGTTCATTTAACTTGTCAGTTTGGTAGATTATACTTAAATTATTCAGTTCACTGTGTGTGTGTGTGTGTGTGTGTTTGTTTGTGATTTTATGCAATGAAAAAAATGTTTAAAAGAAAAATAAGTAGCCATTTATCCCCATTATGGTGAATAATTATATACAAAGCCTTGTTTTCTGATTTAAAAAAAGACCTTGCTAAAAGGTTGGACATATTAGAATTTAAAGTCAAGACTAAATTAAAAACTACCTATTTTCTCAAAGGATTAATTGTGATTTTGAGCTTACTATACTTGAAATCTTAAGTTTATGCATTTTCATTGTATACAAGCTAAATTAACTCACATTTTTTTAGGTTACAGGACCAAAATGCTAAATTAAGTAATGTTCAGTCAACTTTACTTGATTGTTAAAGAAAGCATTAGGGTTTACAGTGTGGTTTAATGTCTCTTTACACATAATTTTCACCAAAAAAATATAATTGTTTTAATATTTACATAATTTAAATGAGAAGACTTAAATTTACTTTTATTTAGTGACTTAAATAAAAATCTTTTTTTCAACTTTTTACGATTATCATGTCCATGTAAAAATGTTTTTGTGACATATCACGTACATGTGTATTGCATCCTCAGATGGATTTGAGTAAGGCTGTTGTTTTACAAATTCAG
Seq C2 exon
GTTTTCCAGAGAAGAATGGATGGATCCACAGATTTCTTTAGGAGCTGGAGAGACTATAGTAAAGGCTTTGGTCTCTTAAGTGGAGAATTCTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001760:ENSDART00000014439:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.196 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(23.7=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(17.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTTCCACACCCATATCCCA
R:
CCAGCCAGAATTCTCCACTTA
Band lengths:
246-1739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]