RnoINT0155639 @ rn6
Intron Retention
Gene
ENSRNOG00000022598 | Trerf1
Description
transcriptional regulating factor 1 [Source:RGD Symbol;Acc:1307167]
Coordinates
chr9:15661260-15664895:-
Coord C1 exon
chr9:15664692-15664895
Coord A exon
chr9:15661472-15664691
Coord C2 exon
chr9:15661260-15661471
Length
3220 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TCGCTCCCTTTCTTCCTCAGGTG
3' ss Score
11.8
Exon sequences
Seq C1 exon
ACCAGCGAAGAGGAAGAGGACGCCGAAGAGGAGGAAGAGGACCCGGAAGAAGATAGGAAATCCATAAAAGATGAGGAGAGTGAAGTACCCAAGACACCAGAGCCACCGCCTGCCCCTGCCCTGGCTCCCACCGAGGGGGCACCCATGCAGGCTGGTGGCCAACCATCAGGCTCCTTCATTTGTGAGATGCCCAACTGTGGGGCT
Seq A exon
GTAAGTATCTGTGTTGTCCCGGCTCTGGGAGGCGTGAGGGTAATGCAGCCGTGCCTAGTTCTAAGAGCAATGGACGTCTGGCAGAGGCCTGCCACGTAGCCACCACCTTCTTACTCGCTTGGCTAAGGGAGAGTGACTGTATGTCCTCTGTCAAGTATGATGCTGCGTGCTGGGGAATTAGGAGACCCTAAAGCCAAGTGTGACGGCTCAGGCTTGTCATGCCCAGCACTGTGGAGGCTGTGCAGAGGAATGGAGACCTTAATGCCAGCCTGAGGTAGTGAGACTCTGCCTCCAGGCCAAAAAAAAAAAAACCAAAAAACCTCCCACCTTCAGGAAGTGTGTGATTGACAGCTTTGCAGGAGAGCAGGCCTCCAGAAAATACACATTGTCTACTACACTGTGCCCTGGTACTCTGCAGGTCCTCTGACTGTGTGTCACCAAAGGCCACATTCTACATGCATTTAAATTCACTAGAAGATTGCAACATGCAACAGGATTTCCCTTTTATAACACAGTGACTTGCCTGAACCACCTCCGGTTTTATCCCTCAGGAAGGTTCAGCTTTTCATAGTCTATAAAGTGTTACTACTTCTAATTCAAATGTCACATTAGTGACATCTGAGCTAGTTGTTTCCAAGCGGCTAAAGTTTGACTTTGCAGTCCGAGGGGACAAAACCTCACTAAGCAACTTAGCGATGTGACCAGGATGAAGGGGTACGTGGGGACCCCACCTCCTCCTGAGCACAGAAGAGATAGACTGAGTGTGGGCCAGTGTCCTCTAAGACTCACATCCTAGAGGCTGTGTAGCATAGCTTCTGTGTGTTCCGCCTGTCCCCACTAGCCTGCACGACTGAGATTATGTTCTAGAGGTGTCACCCCCTTCCCAGGAAGCTCACGTCCTCCACTCATCTGTTTGTCTAATACAGAGCACATGGATGCTGTTGCTGAGTCCCCCATTTAAAAAAGACTTTGAATCCCTGTTTATATCCCAGGCTGGGCGGGTGGCACACGCCTTTAGTCCCAGCCCGCTGGAGGCAGATTCAGGCTTCTCCAGTTTAAGGCCAGCAAGGACTACAGAGTGAGACCATGTCTCAAAAGAAAGAAAGACATAAAATATTTTATAAAATGTTTTACGAAAAATGAAAAGGCTTTAAAAATAAATACAAGTGGGCCGGTTGGTGGTAGCACAGGTCTGTAACCCCATCACCTGAGAGGCAGAGGCAGGTTTGAGTTGGAGGCCAGCCTGGTCTACAGAGTGAGTTCAGGACAGCCAGGGCTACACAGAGAAACCCTGCCTCAAAAACAAACGAACAGAAAATGGAAGTGTACACATGTTCCATTCCCTTTTCGAGAGCATGAGAAAGACCAGTGTACTGGGTCTCTGACAGCCTGGCCTCCATGCCCTGGCATTGCTATTCTGCCCAAATCACTTCCTGCAGATTAAGATGTGACTTTAAGTGACAATGTTTCTTGGTGAATTTGTTCAGAAACTGGGCACTTTTTCTTTAGGGTACAATAAATGATTGGTTCTCAATTTGGGGGTTTGGGGTTTGGTTTGGGTTTGGTTTGTTTTTTGTGGTAGGGGGGTCATCTTTTACTTTGCCCAATCAGACACGCTCAGCGAGAGAGACATTCTTAATGACTTCTTTAAAAAAACTCATCAAAGAAAGCATGATTGATGGCTTATTCCATGCCTAGCAATGAAGCCTGGGTTCAGTAAATCAGAAATAGATTTTTTTGTAATGCAATAAAAAGGACCCATGAGCTGAACAAAGAGAGGGCATCTAAAGCCACTGTGATGGAATAAAGGCCCTTGGTTTGGAGGGCTGTGGACCATAGCCTAGTACCTCAGTGCCTCTGGATAGAGGATAATTTGGTCCTACAATAACATTTTTTTTAGGACTGGGAAGGCAGGACCTGCATCTGGTGGGTAGGGGCCACAGAGGCCTCTACAAACTTGCTGTGCACAGGACAGTCACCACCTGTCCAGCCCCAAGTATCCTTAGAGCTGAGGCCAAGAAGCCCAGCTCTGTGCCAATATTTGAATCTAATCAGGCATGGTGGCAGACACCCGTACTCCCAGCACGTGGGAGAAGAAGGCAGGAGAAGATGCACTCTGGCTATTCAGTGAGGTGAAGGCCAGCCTGGAGCACAGGTTAGACTAACTCAATGAAGTCATTGGTCTGCATATTCACAGCCAGCCATAGTGATAAGACTTGTAAATCTAGTACTGGGGAGACAGAGGCAGGAGGATTGCCTCGTGTTTAAAACTACAGTTTAGGGCTGGAGAGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCTGAAGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAAAGAGATCCGATGCCCTCTTCTGGTGTATCTGAAGATAGCCACAGTGTACTTATATAGAATAAATGAATAAATCTTAAAAAAAAAAAAAAAAAACACTACAGTTTAAACTGTATACATGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAACACAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAAGAGAAAAAAAATAAATCTTAAACTGTATACATAAACTGTGTATAGTAAGTTCCAGGCCAGCCAGGTCTGCAGAATGACACCCTGTCCCCCAAACTATGAGAAAGCCTGGCCCTTTGATTCTCTTAAAGTTTGGGGGTCTTAAACATTGTGGCTTCTGCAGTGTACACGGACTGCAGAGAACATTCATCTAGCAAGCATAAGTAAGACCCAGGTTCAATCCCCAGCATCACAGAAAGCAACCAGACTTAAAACAAGAGCTACCGAGGGGCCCTCTAACTCCTCTCATTTTGCACATAGGGAAAAAAAGAAGTATTTGAAAATCGAGTGGTTTAATGGCCTCTGATATTTGCAACAGGGTTTCAAGTTAGAGCTGGGTGCTAACTGGCTTTGAGACAAGAGCTTTGTCCTTGGTACTAAGCCTCTCGGCCTTTTGCTCTGGTTAGGCCAGTGAAGGAAGTCTTATTGGCACAGTTTGTGGTTGGGGTATCTGAGCTTTGCTTTCTGTGGCACACACCCAGTGCTTGCTTGTGTGAGCCCTGTGCTGTTTCATGTATCCCATGTTTTGCCACCAAGTAACTAACAACCCTAATTTCCTTTTCAGGACTGTAGATGTCATGTCGCTCCCTTTCTTCCTCAG
Seq C2 exon
GTGTTCAGCTCCCGACAGGCACTGAATGGCCACGCCCGCATCCATGGCGGCACCAACCAGGTGGCTAAGACCCGAGGTGCTGTCCCCTCTGGGAAGCAGAAGCCAGGTGGCACCCAGAGTGGGTATTGCTCAGTGAAGAGTTCACCATCTCACAGTACCACCAGTGGAGAGACCGACCCCACCACCATCTTCCCCTGCAAGGAGTGTGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022598:ENSRNOT00000035907:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.853 A=NA C2=0.831
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
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]