RnoINT0107098 @ rn6
Intron Retention
Gene
ENSRNOG00000009448 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:RGD Symbol;Acc:1311176]
Coordinates
chr6:107273336-107276755:+
Coord C1 exon
chr6:107273336-107273502
Coord A exon
chr6:107273503-107276379
Coord C2 exon
chr6:107276380-107276755
Length
2877 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCCTTTCTCTCGTCCTGCAGCAG
3' ss Score
10.89
Exon sequences
Seq C1 exon
GAACGGACTGCCAATACAGGCTGATGGCCACCGTGTGCACCAGTCCCCAGATGGCACACTGTTGATCCACAACTTGCGGCCCAGGGACGAAGGCTCTTACACATGCAGTGCCTTCCGTGGGAGCCAGGCTGTGAGCCGCAGCACTGAGGTGAAGGTGGCTCTCCCAG
Seq A exon
GTGAGAAAGGCTCATCGTGGGCTTTGCTGTCCTGAAGGCAGCTGAGCACCGAGGGCCACAGGCTTAGTGATCCAAGACACTCGTTCTCATCTGTGTCATGTTCTAGTTTGTGGCACTGTAACTGGGATGGGCATTTATTATGGTCTCAGAGCCCCACTTTACTGGGGTTACCCCACAATCTAAGGCCAAGGTAAAGATGTAGCAAAGTGTTCAGAGTTCTGTCACTCAAGGTTACCAGCTTTATTCTTAAGAATAAGATTGGCCGGGATAACGTTTACTGTGGATGGACCACTAAAGTCTACAAATTCTAATCAGGGTGGCAGAGGCCCTGAGGAGCTGGGCTGTGGCTCAGTGCAGAGCTCTTGTCTAAGGCCATAGGCTCTAGCCCAGCACCTTGACAAACACTTAGAATGCACGTAAATGGAAGATCTCATTCTTAAAAGGCACAGGATAGATTCTTTGTTGTTGGCATAGTCTCCTTTCCAAATCATATAACGTTTGTAATTTAAAGATAAAGATTAAAAAATTTTATATGAAAATGGCTGTAGGATGGAAAAGTGTGTTTTTGATTACCTAGGCACGTAACAGGGCATGGTCACCCTCATCCTTTATACACGAGACAGGCACCAGAGAGCGCCAGGGGCTTCCCACTATTCACACAGATTTGTGGCCAGCTGGGAATCAAACCCAGGCTTTTTGACTCCTGATTTTATTTACTTGTTTATGTAGCCCAGGCTAGCCTTGAATTTGCTATGTGGCCAAGACTGGTATAAACTTTAATCTCCCTGCTATCATGCCTGTTTTGTTGAACTACATCTCAGAACTGGTGAAACAGGGCTGTTTAATGTTCAAACTTGCAGGAGCTCTGTGTTTAAGTGACAGGGCAGGAGGGGCCCATTCACAGTGCTCTCCACAGATCTCAGTGTTTCAGGGAAAGACTGAGCCCCAAACAGCTCAAAGCCTCCAGCCAAGCAGCCAGTTCTCACAACCTGAGGTGCATCCTGGAGAAAGGGTCCTTGACTCCTTGGTAACGGCACCAACTGACTGGTGTGCTTGAACAATGCCTTGCCCCTATAGGAGCTCTGGCCCACTGGGGCAGGCTCGGCTGTCTTCCTAGATGCCAGGCTGAGTTTGGGAATGGCCAGGGGTTGAAGGCGTGTGTTAAAATGTTGCTTTGTGAGACTGACACTCAGGCTCCTTTCCCACTGTGAACTCCCTGGGACCCTGGACTCTCTGCAATACTGAGACTCACATGGCTGTAACTCTGTGTGTGCCTGTGTGACAACACTCTGGTGACAGTACCATATGGCAGGACTTCTGCCTTTGATGTTTCTAGAAAAATCCCACTCACCTATCTATACACTGAACAAACTAATGAGACGAAGAAAAACCAGAATGCAGATTTACTATGGTGAAGAGAACAGTCATTTTGGGGACTGAGGATTTGAGCGTGGTGACACACACCCATGAATCCTAGCACTTGGGCTGCACCGGTAGGAAGATTGCCAGTCTATGAGTGACATATCCTGACTTAAGACAAAAGGCAACAAAACCTACCACAAAACCGAACACTGGAGGAGATCTGGACGTTCACATTTGTGGTGAGCGGCAGATGTGTCTACAGTGAGGGATGATGATGGGAGCTTGTTTGACAATGGTGATTAGTAGGCTACTGTTGGGCCCCCAGACCCCACCCATGGCCACAAGCCCTCTTGTTCTCTTCTGTATGCTATCCACCTTCACGTGTTTTCGAGGCGTCTCTCCAGAACCCCAGCTGCCCCCTTCCTGCCTGCCTGTCTTGCTCCATTGGCCGGGCTGCAGATCTATGCTTACTCACTGGTTTGGAGTCACACGGTGTCTCACACTGCCAACTGGTGGCACTGGAGTCACTGGCATGGGGTGGTGGCTTAGGCTTTTCTCACCCTGGCTTCTTTTGCCTAAGGGTTGAGTGAGTATGAAATATTATATGGACAAAGGTGGTCTGCCTCCCATTCTGCTGCCTCCTTTTCTGAGGGAGAAAGCTGTGGTGGAACCCAGACAGTGGTAGGCACTCAGGGTGCTGCTGTAAGTGGGTTTTGTGTCATAGATAAGCACCCTATACTCTACCAAACTATACCCCTAGGCTTTTCTTTTCTTTTCCTTTTTTAGTATTTTCAGCTTGAAATAGGGTCTTACTGAGTTGCCCTGCTGGCCTTGAAGCTGTGGTCTGCATCGGCCTCCTGGGCAGAGATTACAGCCCAGCCGTTTTCCACACCATAACTCAGCACAGTCCTTAGAACCCCGCTTTGAGGCAGATGCTTTTGTTTTCTCCAGCTCACAGAGAGAGAAATGGGGGAAGTGACAGTCTTACGGGCTGTTTGGAGCAGCTATCATGATAGCCTGGGGCTTCAACAGCTGAGAGCGGAAATCAGTTTAGACTTTGAGAAAACAGTGTGCATACAGTGTGCATACATGGGTTTGCTACCACACATGCATGGAGACAGTCCTCTGGCTGTGCTGGTAGAGTGCCAAACCCCTTGGGTGGTCTGGTCTTTTCATGGTGTCTTCTGAAAGAATAGGGGCAGTGGGGACAGTGCTGCACAGAGTCTGTAGGAAGAAGTGGGTAACTGTGGGATGAGACTGGAATCGAACTCTGACAACTACCAGACACTCTGGCCTATATACTGTCACGTGGTTCTTCAGCTCCGGACAGCAGGGCAGGGAGTTAACGTGAAGCCCGTTTGATGGTCTAGTCAGGAAGTGGGAGTCTGGGAAAGGCTGTGCACTGGGCTTAGATAAGAACCACAGGAGGCCCACTAGTGAGGCCAGCAAGGGGTGGGCCACATGAGAGGCTCACGCAGTAGGAGCGCTGCCTTAGCCCTTTCTCTCGTCCTGCAG
Seq C2 exon
CAGCACCGGCCGCACAGTCCAGGGACCTAGGCAAGGACTGCATCGACCAGCCGGAGCTGGCCAACTGTGCGCTGATCCTGCAGGCCCAGCTCTGTGGCAATGAGTATTACTCCAGCTTCTGCTGTGCCAGCTGCTCCCGCTTCCAGCCGAACGCCCAGCCCGGTTGGCAGCAGGGATGAAGGCTGGCTGTGCACCAGTTCTGGATAGTTTGCTGGGAGAAGGGATGGTAAGACATGGCTTGCAGAGGGAGTCATCTTTCAGATATCCAGGGTTGAGCCCCAGCAGCTGCCAGTGCTGGCCTCCCCTCTAGTGCTCAGCAGTGTCTGCCTGATGTGACCACGGGCTGCTGTGAGAAGAGGAACCCTTTACACCTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009448:ENSRNOT00000012757:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.211 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(59.8=91.2)
A:
NA
C2:
PF086866=PLAC=WD(100=58.3)
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]