RnoINT0062287 @ rn6
Intron Retention
Gene
ENSRNOG00000050780 | Fpgs
Description
folylpolyglutamate synthase [Source:RGD Symbol;Acc:1587713]
Coordinates
chr3:11717667-11720458:-
Coord C1 exon
chr3:11720392-11720458
Coord A exon
chr3:11718873-11720391
Coord C2 exon
chr3:11717667-11718872
Length
1519 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CCTCGTTCTGGACCCCACAGACC
3' ss Score
8.11
Exon sequences
Seq C1 exon
CCCTGCCATTTTGATTACGCTGTCTTCTGCCCCAATGTGACAGAGATTTCATCCATAGGAAACGCAG
Seq A exon
GTAAGAGGGGGCAGATGGTACAGCTAACAGCGGGCGCCTGTGGCAGGCAGCTCGGTGAAGAACAGGGACTTTCAAAGTATGCTAGAAGATGACATTTTTTTAAAAAATCGATTTTTTTTTTAAAGATTTATTTATTATATATAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCTCATTAAGATGGTTGTGAGCCACCATGTGGTTGCTGAGATTTGAACTCAGGGCCTCTGGAAGAGCAGTCGGGGCTCTTAACCACTGAGCTATCTCTCCAGCCCCCAAACGACTTATTTTTATTGTTTGTGTGAGTCTGAGTGCCCAGCTCCTGTAGAGGCCAGAAGTCATTAGATCGACTGGATGTGGAGTTACAGATGGTGGTGAGCCACCCTGTGGGTACTGGGGCCTGAACCTGGCTTCTCTGAAAGAGCAACGAAGGCTTTTAACAACTACTCAGTTGTGTCTCCTGCCCCAGGGCATATAGATTTTATTGTAGAAACACCATTTGGTTCATTTTCAAAGTTGTGGTGTGTGGCCGCAACACTGTAAAAGAATGATCGGGTCTAGCATTTTTTTAAAGAGCAGGTTGCAGCCTCTGACGCCTACTGAAATCAGCTCAGTGGGACTCAGCTGAGATTCATTGGCTAGGAGAGTAGAGAGTTCAGTGTGCTCTGCATGAAGATGTGCGGGTACTGCCCAAGACTCCGCTCTGGGACCACGGAACGGGAAGTATGTTCCAAAGCTGTTGTTTATTACATTAATTAATTTATTTGGGTTGGGGCACATGAGTGGGACAGGGGACAACCTGGGGAGTCAGTCTCTCACCATGTGGGTGGGGGCCTGGGAGCAGACATAGGCTGCAGGCTTGGTGGCAAGCATCCCCAACACATGCACACACACACACACACACACACACACACACACATCCCCAACACATGCACACACACACACACACACACACACACACACACACACACACACACACAGATAAAGCCATCTCACTGGCTCCCAAAATGCTTTTTACTATACTGTGTTGTATTTTAAAGACTTTGAAGGAGTGTGAACCATGCAGCTAGACCTCCAGGTCCCAGGTCTGGGGTGGGATCTGGGATCTGTCTTTCTTTTTTTTTTTTGGTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGCCCCGGGATCTGTCTTTCTAACAGGCTTCCTGGGAAACGCTCACACCCACATGGTGAGGGGCCCCAGGGGACACGTTGTAAAGATGAGCGAGAGAGCTCTGGAGTTGGAGCACCAGGCGCTGCCTCCCATGACAGTGAGCAGCAGGCTGCACTGGTCACGGTCCACCGTGTGGACAACCAACGGAGTCTGGTGCCGTGATGCTTGTCGGGACCAGGAGCTAAGCAGATGCTCACTGAGCCTGCGCCCCCTTTCCTCCCCTCCACTGACCTGCCTCGTTCTGGACCCCACAG
Seq C2 exon
ACCAGCAGAACTTCACGGTGACTCTGGACCAAGTGCTCCTCCGCTGCCTGCAGCACCAGAAGCATTGGAACTGCCTGGCAGAGAAACAGGCCAGCTCCAACCTCTGGGGCAGCTGTGGCCCAGAGTCTGCCCGGCCAGGCTCCCTGCTGCTGGCACCGCACCCACCTCAGCCCACTAGCACGAGCTCCCTTGTTTTCAGCTGCATCTCCCACGCCTTGCAGTGGATCAGCCAAGGCCGGGATCCCATCTTTCAGCCCGAGAGCCCTCCAAGGAACCTTCTGAACCACCCCACGGCCAACAGCGGGGCGAGCATTCTCCGAGAGGCCGCTGCCATCCACGTACTGGTCACGGGGAGCCTGCACCTGGTGGGTGGGGCGCTGAGGCTGCTTGATCCCTCCATGTCTCAGTAGCCAAGGAGCGTCCTACACCAGCCTGCCTTCCCACAGAGACTCTCATACTCAGTGCCTTGTGATTTCTGCTCTCAGATTCTTCGAGACTGGCCCAGGGTCCTGGGCTCTTGGTAGAGTGTAGGGATGGGAGGGGCTCTGTGCCTTGGCCTCTCCTTTCTCTGGCAGAGACAGCAGGGGCTTCCCAGAGCCCCTACCATCAGCCCAGCCCAGCTCCCTGCCCACTCTGCTGCCTCCGGGCTCAGGTCCAGCTTATTGTTGGAGCTGCCTGAGGTTAGACCAGAGACTTCCTTCTTCCTCCCAATGCCTTCTGGCCAAAGACAGGGCCCTTGCCTGGGCATTTGGGGACTGGGTGTTGCTGGAACTAATTGAAGCTTTTAAACCCTTTTATTTTTTATTTTTTTTAAATAAATGACAAAACTTTTGATTGATTCCTAACCGCCCAGCTCCCTCATCAGACATTTGGGGGCTGGAGTTTGGCACTGCAGGAGTGTAGGAAGGAATGGAGCCCTAGCAGTATAGCCTGGGATTAGTCCTCTCCCTCAGAGCATAAGGTGGCCTGTGTCAGGAAAGACTGGACTAATGTTTATGTGCCACACACCAAGGCAAACCTCCTGGCCAATAATGTGTCCAAGCTGGATGCCCACCTTACGGATGAGGGAGGGTGGCCGGCTTCCAGGAGCTTTGGGCCTGGACCCATAGACCCATTGCCAACAAGAGTCATGTGCAGGATTAGAACCCAGAGCTTTATAGGGGTAGCTACGTCCCGGACCCCAGAGACTATACACAGGGCTTTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050780:ENSRNOT00000070916:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.176
Domain overlap (PFAM):
C1:
PF0287516=Mur_ligase_C=PD(14.5=52.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTACGCTGTCTTCTGCCCC
R:
GTGGGGTGGTTCAGAAGGTTC
Band lengths:
347-1866
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]