RnoINT0134164 @ rn6
Intron Retention
Gene
ENSRNOG00000058461 | Sfpq
Description
splicing factor proline and glutamine rich [Source:RGD Symbol;Acc:727923]
Coordinates
chr5:145085670-145088498:+
Coord C1 exon
chr5:145085670-145085791
Coord A exon
chr5:145085792-145088071
Coord C2 exon
chr5:145088072-145088498
Length
2280 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
GTTAATTACTGTTCCAATAGCGT
3' ss Score
4.07
Exon sequences
Seq C1 exon
ATCCCTATGGTTCAGGAGGCCAGAAATTTCCACCGCTAGGTGGTGGTGGTGGCATAGGTTATGAAGCTAATCCTGGAGTTCCACCAGCAACCATGAGTGGTTCCATGATGGGAAGCGACATG
Seq A exon
GTAATGTATCCTGTGGGACATAGTATAAAGGAGACTCTTCATTTCACGACTTGAGTTTTATTTTTCCTCTCTCTTTCTCTCTTTTTTTAAAGTAGCTGACTGGACTTTCAGTTCCCCCATTGTGTAAATATATATAATACCGAGGACTACTTTGGCAATGTAGAACTGTGTGTGGTGGTAACCTAAACAGATATGGTTGCCACCAAGGAGTCAATGCTGTTATGTTAGTCTGTGGAGTTATCTTTGGCAATAAGTATGTAGGTATTTTCCATTTTATTGTCTGTGCACTTTTGAACCTCCAGTGCATGGCAAATCCAAATTTTAGGTGTTATAGATAATTGTATATGGTTTTCTTGCATCCAAGTGAGAAATGGCACAGTGCCGTTCTGTGGTGTTTTCCAAAAGTAGGAGTCAGACTTGAGGCTTGTAGTCTTAAGCATGTAGGTGTGACAGGTAGGCCTTTGACCTTATTTGTGGTTTCTGTTTCTAGCCCATGAAAAGGGGAACTGTCTAGTGTTTTGACTCGTCGTTTCCCACTTGTTGGGTCTCTCTGTAGGTTCATCTTAAAAAAAAAAAGTTTCTACTTTGCTACAGGGTAGCAAAAGTCAACAATAAGCATACTGATGGTGTGCATTTGTTCTGAACCCCTTGATGCAATCATGCTTTATCTATATGGAGATAGCCTGTCAGGTGCTTGACAATAGTCAAATGAATTTTGGTATGAGTGGCTGCTGTAGGGGCAGGGCTTTACAGATCTTTAAGAACTGCATTTTGGTGGGAAAAAAATTATAGCTAAATTGAATATAAATAATTCACCTATAGCTTTTATCTCAAAGGAGCTGCATTTGTAGCTCATGGGATTATGTTATAAATAGAAATTTTAAGGTTTTAGTGTGAGACTTCACTTAAAACCTGCCTACAGTTTCTTGAGAATTAAAGTTAGCATTATAAATGGCTGGATAGGTTTCTTCAAATTGAACTTAACAGTACTTCCTAGAAGGCACAAAGTATCTACATTAAATTAGGTAACTAGTTTGACATGTGTTTAGGCTCTATGTCTAGACGTGGGTTTATACATTTAACAGATCCTGAGTCCTTAGATACTGTAATATAACTGAAGCCTCTAATTTTTTTAGCTCTTTTGTAGAAGTATACACCTGAAGACTTTCAGAAGAAAGCAAAGTCTGTTCAAGTAGTTCTGTAGTGTTTTGTTTTTCGAAAGTTGAAATTGTAGGAACAGTTAAGCCTGGTGCAATCTTTACTTTTATTTATTTTGATTAGTTATTAGTAACTGGGCTATTTTGAGTAGAATTTTAAGTGGAATGCCTGTAGGGTTCTGCTGTTAGGATATGTGGGTTTTATTTTTTACTTTGTGCTTTAAAAGTCAAAATACATAAAACTAGATGGGGCTATGAAGTCACTCACTGCTTTACTGCAGCCCCCTAGCTTGGTGATAGGCTGTTTTGGGAGAGAACCTAAAACGTGGAATTATAACAAAGTGACAGTGCACTTTCAAAACTAAGAAAAGCTGGACTTTGAAGTAGGTGGACTGTCTGTATACTGTGTTTGTAACAATGCAGAAACATACTGTGCATGTAAGTGTCTCCGGTTAGTAGTGATGGCTCTGAAGTGTGGTATGCCTGTGAGACTGTGGCAAAATGAGTTTTTGATGAAGTTACTGTGCCGGATAAGTAAAAAATACTATATTTTTTTGTGCTTTTTCTATTTTGTAGTCTGGTAGCATTTTATTAAGCTTCATTCCAACCTTTTAAGATTTCTGCAACTTTGCAGATGTGTCATAAGATCTTGAAAAGCACAAGGTTTCTTATGCAGCACATGCCACTACCTGGTGAGTAGGCCTTTGTCCTTCATTGAGCAAGTTGCTTTTTCTGATTGGACTTTTGTAGGCTTGGAGATGACTTTGTTTTCACACCTGGACAAGCATGTCAGTGGATTAATCTGATGTGAATTTTGTAGAACTCATTTTGGAATGGGTTTTCACATCTGCACTAATTTTTGAATTTTTTAGCACTACAGGGAAGATCTATTCTTTGAAACAGGTGTATGAGAATGGCTCAAGTGGGAACATACCACAAGGCATGTATTACCGTAAACTAATTTTCAAATTACCCTTTTTTCCTTTCTATGTTCCCGGTACCTGTGGATCGACTCATTGGTGATTGTATCGACGAACGTTGACTACGGAACCTTCTAAAATATTTACTTAACACACATGGACATCAACTACATTTAATGAACTGTTAATTACTGTTCCAATAG
Seq C2 exon
CGTACTGAGCGCTTTGGGCAGGGAGGTGCGGGTCCTGTGGGTGGACAGGGTCCTAGAGGAATGGGGCCTGGAACGCCAGCAGGATATGGTAGAGGGAGAGAAGAGTATGAAGGGCCAAATAAAAAACCCCGATTTTAGATACTTAGGCTTTCATTCCAGTTTGGTTTTGTCTTCTTGTTTAGATACCACTTAAATTCTTGGCATTTTAGTAAGAAAGCTACCTTTTTATGGATGTTAGCAGTTTATTGACCTGATATTTGTAAATGGCCTGTTTGGGCAGGTAAAATTATGTAACGCAGTGTTCGAAACAGGAGAAAAATTTTTTCATTTACTTTTTTTTTAACTGTATAATGTTTCTCAAGTTAATGGCAGTGTACCTTGTGCCACTGAATTTCCAAAGTGTACCATTTTTTTTTTACTGTGCTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058461:ENSRNOT00000084202:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.957
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]