RnoINT0071171 @ rn6
Intron Retention
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:67973634-67976343:-
Coord C1 exon
chr13:67976187-67976343
Coord A exon
chr13:67973756-67976186
Coord C2 exon
chr13:67973634-67973755
Length
2431 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GTGTTTGGACTCTCCTCTAGACT
3' ss Score
7.62
Exon sequences
Seq C1 exon
TTCCTCCCTCCATTGCTGCGGGTCCTACCAATGTAACAGTGACCGTGAACGTCCAAACTACTTTGGCTTGTGAAGCTACTGGGATACCAAAGCCATCAATCAACTGGAGAAAAGACGGACATCTGCTTAATGTAGATCAAAATCAGAATTCATACAG
Seq A exon
GTAAGAATAAGTCATTTATTTTAAATATTCTTAAATTTTTACCTGGCACAATTGTACATAATTATTAGTACTCTATCACATTTCAATACATTTATGTGATGTATAGTGATTAGGTCCGAATAATTGGTGCATCTATCACCCCATACATACATATTGCTTTGTGTTAAAAATATTAAAAATCTGTCAGGTGCTGGCAGCACATACCTTTAATCCCATCACTCAGGAGGCAGAGGTGGGCAGATCTCTGAGTTTGAACCCAGCCTGGTCTACAGAGTGAGTTCCAAGACAGCCAGGACTACACAGCTAAACTCCACCTTAACACCCTTCTCCCCAGAAAAGAACATTAAAAATCCTTTCTAACAGCTGTTTTGCAATGTTCGGACAGTCAGGCATTCCTCTAGGCAAAACTTCCGTGCTGCTGTCACTGCTCACCCCACCCCCACCACTCCCAAGACCTGGTAACCACTATTCATTTCTTTACCTCTCTTAGCCCAGCTTTTATCTTCAATATGTAATGAGAACAAGCAGAGCCTTTTCTGTGCCTGGCTAATTTCACTTAGCATAATGAAATCAAGATAATTCCATTGTAAAAAATGTCCCTCCTAGCATTGAGAAACAGCTTTTAACCCTATCAACCGGGGCATCAAATATTTAAAGAATAAAGATTTAACCAGTTACTAGAAAGTACTTCCTTAGTATGAAATTTGATTTCCAACCTGTTTTTTTTAGTTAATGATGCAGCTATAACGGCCATTGTTGAGGTCTGCGGGCATGTTTAACCTAGTTTGTTTAGTGTCTTCTATAATTTCATAATGACAGTGGCCGTAGACATTTTTTGTCTTTCACATAAAAGACAAAGGTATTCTGTGGAAGTCAATACAAGCTTTAGTTGTAAAATAAAAAACCAAATTTAACACTTCGAAATGTAATGTAGCTATTGGGCCACTTGGGTAGGTAGAAAAGAGCAGTTTCTCCAGTCCTTACATTCTTCCAGCTTTCCTGCTACAACTTTCCATATGGCGGTGTATGTGTGTTGAAGGCTGAACTTTGAGGCACTGAGAATTTCTGCCAGTTTAACTAGCAGTCTGCTATCCCATCAAGCTCTCTGCCAGAGTGCTAACATCAAATACAGTCAGAGTGACACTCCGACAAGAAGTAATTCTGACTTAGCAGGAAATACGAAACCAGGAATGATTCCACTGAAACTCTTATCGGCTCTGTTTCTCTCACCGTTTAATGTTTGGCATCGGACTCAGTGATTTAAAAGTAGACTTTGTGTGGAAAGTGCGTACATGGCATGTCAAATACACTTCTATTACACCAAATCCACGTCTCTTTTCTTTTTCCATTTTCAAGTGTATAGCATACATGCATACATATGTAATTACATGTGCATGGGTACATGTGGGCGTGTAGCAGGACTGTACATATGTGTGCATATGGAAGCCTGAGGCAGATGTTTGGAGTTATCCTCAACTGCCCATGTTATTCACTGCATCAGGATCTCACCATCAGCCTGCTTACCAATATAGCTATTCCTGCTAGCCACTGGGACCCTGCCTCTGCCTGCCAAGTCTGGACCTACAGACTTGGGCCTCTTTCCTCTTGGCATTTATGTGGACTACTGGGGATCTGACCACTGGTTTTCACATCTGTGAAGCAAGTGTTTTAATCATTGAGCAATCTCCCCAACTGCACACCAAACTGGTTCTGTTCCAGTATTGCACAGTTTGAAGAAAACTGATACTTTAATTTGAACTTACATTAAGTCAGATGAGAATGTTTCTAAGCCTTCTAAACATACATTCATTTTTGTTTGTTATTATAAGTTAAGGAAATATTACCAAGAGATTTACATACATAAACATATATGTCAAATATATGCATTACATATATGCTATATACATATATATATATAGGCATGGACGTGGCACATCTCCAAAATAGCCATGAGCCATGACATATAAAGAGGTGTGTTAAGTGCAGGGGCGGGGACAGTGAAGCAGATAGACCTCTACTCACTTACATAGCATGTAAGTAGTCAAATATACATCCTCAAAGTCACCGATAAATTTTGAGATGCTTTATGAGAAGCATTTCAAATGGAGCCAGGAATACATTCTATGCTATTAAGTAGTAGCTGTCAATATACTTCATCTACTAGGAGAAGAAGTTTGATGATGATACATGTGTTCAGAAAACATAAGATTCGGGGTTCAGGCAGTTCTTCCAGGCAGCTGTCTCTCATTAACATAAAGTTTGGATCCTTTACCATATAAAGTTCCATTTTGACATGCAAACTTTGCATCAGAGAGATGACGCTCATTTGGCACAAAGGAGGAACTCCTTTCCCCAGCTTCTCTCAGTCTCTTACCATATCAACTGCAAAACACATGGAAACTGAAATACTTGTGTTTGGACTCTCCTCTAG
Seq C2 exon
ACTCCTTTCCTCAGGTTCACTCATCATCATTTCCCCCTCTGTGGATGACACTGCCAGTTACGAGTGCACCGTGACAAGTGATGCTGGAGAGGACAAGAGAACAGTGGACCTCACTGTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627:ENSRNOT00000030971:76
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.357
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(55.6=94.3)
A:
NA
C2:
PF0767911=I-set=PD(43.3=92.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]