RnoINT0071195 @ rn6
Intron Retention
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:67928795-67932949:-
Coord C1 exon
chr13:67932712-67932949
Coord A exon
chr13:67928858-67932711
Coord C2 exon
chr13:67928795-67928857
Length
3854 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACG
5' ss Score
10.19
3' ss Seq
AATTTTTCTCTCTTCGGTAGGAG
3' ss Score
7.3
Exon sequences
Seq C1 exon
GATTACACAGAGGACTACATTCAAACAGGACCTGGGCAGCTCTACGCCTACTCAACCCGGCTGTTCACCATCGATGGCATCAGTGTCCCCTATACATGGAACCACACCATTTTCTATGATCAGGCCTGGGGGAAAATGCCTTTCTTAGTAGAAACACTTCATGCATCTTCTGTAGAATCTGACTACAACCAACTAGAGGAGACACTGGGTTTCAAAATCCACGCTTCAATCTCCAAAG
Seq A exon
GTAACGTTATTAAGGAAAGCTCCAAACAGCTGTGCCGTCATCGTCATTCTTCTCAACAAGATAAAGACAGGTGCCAAAGCCATTCAAATTAGGAGTCTGAGTATGGAGGCCCAGAACAAACGTGCGAGAGTTGGGTTTTTATATGTGCTGTATTCTTTGTTTTGGTAAAACTTGTTCAGTTGCATTTAGTTTACTAAGGTGCCTCTTCAGGCCACCTAAGCAATCAGGCAAAGTTCTGTCCTCTTGACCTATGCTTCCACAAACCATCTGCATAACAGTAATAATGACTTGTGAGAGGATTAAATATTATCCACCTGGACGATTTTTTTCTTCAGGTAATAAAGTTCATTTTTAAATACTGTGTTTATTGACGAATTTTCAAAATTCTTGAGATATTTCAAAATTCAAAATTACTGATGTAAAACACATCCCAGCTTAAACTAATCAGAAATTTCTAGATTTTTCAAAGCAGCTTCCTTTTAAGTGCTTTGTTCTCTTTATGGAATATATTGATGTTTTCCATTGGGAAGGCTCAACCAGCATGGATCAGGCAGAGCTATAACACAGAGAAAATGGGGAAACAAAGGAATTCACATTGATACGTCTTAGTAGCCACTTAGGACTTAGTAATGTAGCCGTAAAGTTTATCATCCAAACCAAGACTCCTATGAGAAAAGGGTCAGTCTTGCAATGAATTTTTTTCCAGGAAAAATGAGAAAATCTAGTCATCCTGGGTGAAGGTGGCTATCAGACACTGTGGAGCAATAGTTATAATGCTATCATTCCTTATTCGTGGAAATCATTATGTAATATGTGCCTTCTGAACTGCTCACCATTGTCTAAAGATAGCCCCACATCTCCATCCAGGTGGTGCCTTGTGACATGCACTTGCATGAAGCGTCTGGTCCCCAGATTTCCTTCCCGACCACTGCTGTAGTCAATTCTTTGGCATTTGAACATTTATTGACTTTTTTGGTAACTCAATTTAGTTATATACATATATCTTTTTACCCAGGTAGGATGTTAACTACCTTTTATTTTTCATTTGAGTTAAGCTTAGCTCTTCTCCACTGCATGACCGTAGTAGTAACAGACTACAAAGTAGCTCATTCCTCACAGATTTCACTCAGCAGTGCCCACAATGTGTTTACAACTTTCCTCAAGTGTTACTTTGTAGCGCCAGTACTCAGGTGGGTTGGCTGCAGAGCTCTTGATCACAGGCTTTGTAGAGAAGTAAATCGTGTTGCAGCGTCAGAAGGTTGGACATGCTGTAAGGAACTAAAACCATTGCTGATATGGACTTGTCTGCATATTTCTCCATGTTAGGCTTGCTGACGTTTAAATGCTAAGCCTAAAGCCAAGTGAACATCTTTGTACTGTCTCTGAGATTGTTACCAAGCCATCTACATCCCAGAATATAAGGAAACACATCTAAATTTTGTTGTGGTCCTTGCATGTATGTTTCTAGGATATGTGAGTTACATTTGAAGATGGGCCCTATGAATTTCAAGTTACGTGCCTGCAGTTTCCCAGTAACCACCAGGGGGCAAGCTTGCATTCTTGGTTGGTCAATTTTTTTTTTTAATGTTCAAACTCTTTTCTAACAAAATCACAGAAATAGCCTGACATGACTATTTTAGAGGTTTCACCTAGTGTTCTTTATAATAGAAAAATAATAAATAGATATCTTAGAAACTAGAAATAATAAATGAAATAGTAAATTATGACACGTGTTTAATAATCTCTTAAAGAATCATTGAAATAATTTTCAAGAAATAGTTAATTCATTTTTTTACAGACAGTGGTTGGGTGCCTGTCATGTACTAGGCACCACTGCAAGCTCACTCAAGGGATAAGGAGTACATTTATGAGTTTGGGTCTCCAGAACCCAGTTAAATGCTAAACACAGAGGCACATGTGTGTGCCCCTGGTAGAGAAGATGCAAGAGAATCCTGGAGGCTCCCCAGTGAACTAATGCAGTAAAAATGGCAAGCTTTTGGTTCAGTAAGAGAGAGACCTTATCTCAGAAAGAAAGAAAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAGAAAGAAAGAAAGAAAGGAAGGAAGAAGCTAGCAGAGGTTGACAAAAAACATCATAGCACCAACATCTGGAATCCACACACATAAGCACAGATGAGTATGCCCACATACTTGTCTGTGGAAACACATATATCCACCACACATACACATGAAAAGAAAGGAATAAATACGTGAAAATAATTTGTAACGAAATAAATATCTTGTCTTAATGTGAGAATTGTTGGAAAAAGAAGACTAAACCCAGGCCTAAACTTACCTGTAAAGTCCTGCTTTAAGTGGATGGGTAACTTAAAGTAGTTCTTTGTTACATTCTGAATAAAATAGAGGATAATAAGATACAAATTTGCATGATTTTTGTATTCTAAAAATCGGGTAACATATTTAAATCACATGAAAGCATTTGCTATGTGGGACATACATTCAAAGCTTTTATAATTGCAACCTCCTTTGTGCATCAAAATCTCTCAGAGGAAGGAGCAAATGGTCAGGTCTTTCCTACGCACCACAGAATTGTTGAAATCTGTCTCCAGGCCTTCCCCCATTCACTGGGCTTGTTTAAAAAATTTTTTCTTCCATTAGAAATTCCCTTTAATGGCCTGGGTTGATCTCAGATAGACTGTTCTGCTTCCTCACCCTCTCAGGGGCTGGCAGTGTGGCATGAGTCACCACACCCAGCTCCATGTACTGAACCATAATAGTCAGTCCTCTGTACATGGTGGCATACAAGAAACCTCCCCCTGCAAAATTCCCCAAAGGCTATCTAATGAGAAATATCTCTCCTGATTAAATCCAAAAATGCAAAGCTTCTATTGATAATTAATTATGTTTCTTTGACATGATTTTTTTGCAAGTTTATTCCCAACATGGTACCCTACACACATACTGTTTAAGTTTAAAGAGCGTAAGAATGTATGAATAACTGAACATAAGTTGTAATAACCAGTTCAGCAGATGAAAGTCCATAAGGCTGTCCTCTTAGGCCTGCCCACAGGAGCTTTTGTTCTTGAGCACCTTATAAGATGTTACTCTCGGAGTCTTCATCTGAAAACTAGGTATGGTGACAGCAGTAGGGATGGCATGTGTTTGAATAAATGAAGCAGAAGGTGACCTTTAAACCATCACATACTACATGCGGAGAATGCTTTTGCTCCACCCACCTTGTTCCCACTCCTTTCCCAGTGGCTGGAATGCTCCTGGGAAAGAGTCTTTCAATGATCATTTTTCTGCCATCTACTTCATTTGCTCTCGCTCAACCTGCCTGCTGCCCTGGGTTCAATTGCTCAGAACAGTGAAACAGTCACACATAGAATTTTGGCCACGATTCTCAACATGGCAAATGGAGAAGACACAGGGGAAATAAATGGGGACTTCTGCCTAGAATGTTGATTTTCCACTGAAGCAAAGGCCTTAGGGTACTTGCACATTACGTCCTTCCTCCTTCAGTGAAAGTGAGCCAGTGGTTGGAACAATGGTATGCACCTATAGCTGTACCCAACACACAGTTACCTTGGGTTCTCTCTAACTATTACAAAGTAGCTCATTTGGTTTTCTTTTTATTGCTTCAAACAGAAGATGTTTCCAGTCAGCTTGCCAACAATATCTGGACTAGGTTGTTTACCTCTTGGTTGAAAAACATGAAGGTCTCCTTTCTTGCTTGTTTCCAATACTGTATTTTTCATTGTTCCTTCTTTGATATATCTTCCCAGGGAAGGCCATGCTGGAATGACAAGTGCCCGTGTTCTGACTGGTCTAATGGTTAATTTTTCTCTCTTCGGTAG
Seq C2 exon
GAGATCGCAGTAACCAGTGCCCCTCTGGTTTTATCTTAGACTCAGCTGGACCCTTCTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627:ENSRNOT00000030971:98
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:
PF074747=G2F=PD(26.1=61.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]