RnoINT0157588 @ rn6
Intron Retention
Gene
ENSRNOG00000005868 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:RGD Symbol;Acc:1565122]
Coordinates
chr3:52309574-52311075:-
Coord C1 exon
chr3:52310887-52311075
Coord A exon
chr3:52309685-52310886
Coord C2 exon
chr3:52309574-52309684
Length
1202 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
GTCCTGACTTTGCTGCCTAGATA
3' ss Score
5.22
Exon sequences
Seq C1 exon
GCTCGAGAGCTGCAGGCTCGGATACTGAAGCGAGTTCAGATGGAGCAGCCAGATGCGGTTCCCTCACAGAGACACTTCGCAGCTGAAATTTGTGCAGAGATCGCAAAACACTCCGCTGCTCAGCGAGACTACGAAAAGGCAATTACATTTTATAGAGAGGCCCTGGTTCATTGTGAAACGGATAGTAAG
Seq A exon
GTCAGTGCTGTTGTAACAAGAATAGGTACCTGCATTCCAGGTACCATATAATTTGCTCAGATGTAGAAGCCTATGAGATTATTAATAATGAAGATTTGAAAATAAATGTAGCAACAAAAATAAGTTTAAAAAAGCAATTGTGTTTCTGGAAAACTTTCAGAGTGCATGTGGAGCTAGGAGTGGACTACACAGTGTAGTGTTTGCCAAGCACGTGCCCAGCTCTGAGTTCATTCTCCAGCAATGCAAAATCAAAGAACAAAACCTAATGATGTCTTCCATCGGGGGAACTGCAGAGCTGACACAGTGAAGTGTTTGCCACACGAGCATAAGGACCCAGTGTTAGCCCTTGCATTCACCAAGAAGCTGTAAGAAAAGCCAGGTGCAGTACCACACACTTCGACCAGCACTGGCTTGTCAAAAAGACAGGAGGGTCACTGGGGTTGTGGGACAGTCAGCCTCTGTGAGTGGCTGAGCTCTGGATTTACTCAAAGACCTTGTCTCAAAACATGATAGAAAGTGACAGGGTACTTCACCTGATGTTGACCTCTGACCCCACACACACACACACGCACTCACAAACGTATAGTTTGTAGTGGATTACGTAATGTAAACCAAATCTGCGATTTCGTTGCCTTAATAGTCACTTCGAAGCTGTTTTTCAGCCACAGATGTCTCAGCGTAGGTCGTTGGATTCAGTTAGGTCAGCAGTGCCAAATACGCTCCAGCATCTGTATGTCAGTGGCTCCTTGGTGCTGGGACTGTGAAAGGATGGTAGTGACTCTGGTCACTGACGGCATAGCCTTACAAAGCCATACAGAAGCAGGCACTTCTTCAGGGGTGGCTAAGAGAGTGGAAACACTAGTTCTGCTCAGAAGCATATCTTAGCAACCTTTTTTGTTTTACTAATGAGAAAACATGTTTGAAGAGGTTTGCCCTGGTCTTTCTCAGAGGTTTATACTGAAATGCCGTATGTTGCTTTAAAATCAGAACACCTTCGGTCTGTATTTACCAAGTGAGTTATCACCTGCCTTTGTCTTCCAGAAGAGAAAGTAGTGATGAAGGTGCCTATCATCTATCTGGTCTGTTGTACGTGTCATTTTTATTGCTGTAACTTTCAGACAAATGAAGTTTAATCTCATCCAAACATTTACTCATTTTATTTTGAAATCAGTGTTCTGACTAGTCCTGACTTTGCTGCCTAG
Seq C2 exon
ATAATGTTGGAACTGGCCCAGTTATACCTGGCCCAAGAAGACCTTGATGCCTCCCTCCGGCACTGTGCACTGCTTCTCCAGAGGGACCAGGACAACGAACCGGCCACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005868:ENSRNOT00000007832:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134241=TPR_12=PD(7.8=9.5),PF145591=TPR_19=PU(36.8=39.7)
A:
NA
C2:
PF145591=TPR_19=FE(52.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAGGCTCGGATACTGAAG
R:
CATGGTGGCCGGTTCGTTG
Band lengths:
291-1493
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]