RnoINT0142974 @ rn6
Intron Retention
Gene
ENSRNOG00000003537 | Spta1
Description
spectrin, alpha, erythrocytic 1 [Source:RGD Symbol;Acc:1305194]
Coordinates
chr13:92327838-92332082:+
Coord C1 exon
chr13:92327838-92328047
Coord A exon
chr13:92328048-92331785
Coord C2 exon
chr13:92331786-92332082
Length
3738 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
GTGTCTTTTTTTCCCTGCAGGCT
3' ss Score
12.82
Exon sequences
Seq C1 exon
GACACGCTGGATGCCAGTCTTCAGAGCTTCCAGCAAGAAAGGCTTTCTGAAATCACTGATCTGAAGGACGAGCTGCTGGCTGCTGAGCACAGCCAAAGCAAAGCCATTGAGGAACGGCACGCAGCCCTGCTGAGGCGCTGGGAACAACTGCTGGAGGCATGTAGAGTTCACAGGCAGAAGCTATTGGAGAAGCAGCTGCCTCTACAGAAG
Seq A exon
GTCAGGAGTGAGGGAAGGGAAAGTGGGAAGGGGCGGAGTGAGGTAAAAGTGCAACTCATTGAAGTATAATGGGTGCTCAAAATTATCCAGTAATTATCCGGGGAACTCAAACACAGTAACTAGAAACTAAATTTGGAAGTTGTATAGACATTTTTAGACACAGAAAGGGCTCAACAAAACATTCATTTTTAAATTGAGTTTTTTAAAGACTTATTTTTATGTATATGAATGTTCTATCTGCATGTATAATGCATGCCGGAAAGGGTATCAGAATTCATTATAGATGGTTGTGAGCCACCATGCGGTTGCTGGAAATTGAACTAAGGACTTTTGGATGATCAGCAGGTGCTCTTAACAGCTAAGTCATCTCTCTAGCCAACAAAATATTATTCTGAGGCAAAAAGGAATTCATTTTCTTAAAACGAATTGCTGTTTTTGTTTTGTTTTCAATGGATTAAGACATTTTGTAGATGACTTAGGATGGAAGCCAGACACATACAGTGGGAGAGGTGGGTAGAATCAGAGTATGGACAGCTTATGTAAATAAAATTAAAACTGACAGCAGAGTTGGTCCTGTACATTTCTCTAACCCAGATAAAAATGTCATTGGAAAAGTAACCATAAAGCATGCTTTCTGTGTACCTCCTTTCCTAGGGAGAAATCCTCAAGCGTGATACTTACTACTAAATCTTGTGTGTCCCCTTTAAGAAGATATTTGCATCCTTTTCTGCTTTTCCAAGTTTTCACTATTAAGTAAACTCATAGTTCTGGAAATGTAGTATTTCATGTAGATCTAGGAGACTAAAGTTTTCTTTCCAGTGCTAATATCTGAAGCATATCAAATGGCAACCATACAATATTGATAATAAAAGAGAGCAAAGCTGAATGTGGGGGCCTGCCCAAAACCCCAGTTTTTGGACTCAGGAACAAACAAATGGATTAAAACAATCTAGACCAGAGAGGTTAGAATAGCAAAACGCTAAGATATTAAAAGCGGTAGTGTAGTTCAGTGTGATAGTCAGTGGTAGGGAACATGCTTAGAATGCACCAGGCCCCGTGTTTGATCTTCAGCACCACAGAAAAATTGATTCAGAGTACTCAGTGCTGTTACTACATTCAGATCAGGAAAACAATTGCACTTGGCAATAATTTAAGGCAGAGAGTTAGAAGGCATACAATGAATCTCAACTCTTAATTAATTGGTACTCTATTGAAGAATGTGGACACAAGATAAATAAGTCTTAATTGAAAAAGTAAAGCAATTATATTGAGAGCTTTATGTTCATATATACATTCTACATAGAAAGTTACCTGACATTTCTTATTCTGTAAGAACTCAAGAAATTAGACTCCAGAGAGCCAAATAACCTTATTAAAAATGGGGTACAGAGCTAAACAAAGAATTCTCAGATTAGGAGTATCTAATGGCTGAGAAGTAGCTAAGGAAATGGTTGACATTCTTAGTCATAAGGGAAATGTAAATCAAAACAACACTGCGATTCCACCTCACACCAGTCAGAATGGTTAAGATCAAAAACTCAGGTGAGAACAGATGCTGGTAAGGATGTGGAGAAAGAGGAACACTCCTCCATTGTTGGTGGGATTGAAAGCTGCTGCAACCACTCTGGAAATCAGTCTGGAGTTTCCTCAGAAAATTGGACATAGTAGTACCTGAGGGCCCCACTATCCCACTTCTGGGCATACACCCAAAAGATGCTCCAACATATAACAAGGACACATGCTCCACTATGTTCATAGCAGCCTTATTTTAGTAGCCAGAATCTGTAAAGAGCCCAGGTGCACTTCAACAGAGGAATGGATACAGAAAATGTGGTACATCTACGCAATGGAGTACTACTCAACTATCAAAAACAATGACTTTATGGCATTTATAGAAAAATGAATGTAACTAGAAAATATCCTGAGTGAGTTAACCCAATCACAAAAAAAAACACATATGGTATGCACTCACTGATAAGGGGATATTAGCCCCAAAGCACAGACCACATGAAACTCAAGAAAGACAAAGTGTGGATGCCTCAGTCCTTCTTAAAAGGGGTTATAAAAATATTCATAGAAGATATGGAGACACAGATTGGAGCAGAGACTGAAGGAATGGCCATGCAGAGCCTGCCCCACTTGGAAATCCAGCCCATATACATACAGCCACCAAACCCAGATAATATTGCTGATGCCAAGAAGTACATGCTGATAGGAGCCTCATACAACTGTCTCCTGAGATGCTCTGCCAGAGCATGACAAATACACAGGTGAATGCTAGCAGCCAACCACTGAACTGAGAATGGAGTCCCCATCAGAATAGTTAGAGAAAAGATTGAAGAAGCTGAAGGGGTTTGCAACTCTGTAAGAACAACAATACCAACCAATTAGAGTTCTCAGGGACTAAACCACCACCCAAAGAGTACACATGGACAGACACATGGCTCTAACTGCATATGTAGCAGAGGATGGCCTTGTTTGGCACCAATGGGAGGAGAAACCCTTGATCCTGCCAAAGCTGGAACCCCCAGTGTAGGGGAATGTCAGGGCAGGGAGGCACAAAGAGGTAGTTGGTTGGGGAAAACACCCTCATAGAAGAAGCTAGAGGGGTAGGATAGGGGTTTTCGGACGGAAAACCAGGAAATACGATAGCATTTGAAATGTAAATAAAAAAGTATTCAATATAAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAGCAAAACATTTATTTTAAATTTTTATTATAACAATTCCACTCATCTATAACACATGAAATTCTCTATAGATTATCTGCCCATCTTGTTCGATTTCTTTCTTTGGGTTGAATTATTTTGGCATATAGATTACTAAAATTTGTATAGAATAGTTCTTCTCCCCAATTTAGATCGTCTTTTCTACCTAGTTTAAATTTGAATTACAAAAAACTCATTGTAACAATTTCTCAGAAAAATCATGTTGACTATTCAATCAGTTGAGCCAAAAACATACTTTTAATCTGGAATCATCCTATTGTTTGCTGTTTAGATCAGTCCATGACATCTCTGTCTTCTAGTCATGTAAGTTCAGAGTCCTTGGAGCATGTGAGTGACTGTGGACAATGGTATAGGAGCAGGTATTTCATACACAGAGTGTCGGTCAGTATGTAGAAGATGGGTTTAATCAGTTAGGCTTTAGATGAGATCACAAGAAAGGTTTAGAAGGAAGGTGGGAAGAAGTCTTGAATTGTGAGGGTGTGTTGTCTACAAAAGATGCAGGATAGAAAAGGAGACAGGGTAAAGGATAGAATAGGTAAAGGATAGAATAAAGTTGCTTGATTTATTTTCATCATTTTTCTCAAATATTCACTCAAACACTTGTTTCTGAATGTTCCTTATGCCAGGCAGAACTTCTTCAGTACAAAGTTTAGAATAAGAAATAATGTATCTGAAAACTACTCTTATAATCCTTAGAATCATGGAGGTGAAAGAACATTGTTAGCCAGTCCCTTTCTTCATCTATAAATTGTGAAGAAATTTCACACAATGGAAAATACTAAATCCTGACAGTTCTGCTAATCCTTACTCATCCCACCTCATCATGGGGTCACTGCTAATTTTAGTCTCATTGGTTGAGATTGCTGCTCTGCAAATATTTGAAGACATTGTTTTTATTCTCAATATTCTCCTCTCTTAAAGGACTTTGTCAGAAGTGATGAGGGTGTCTTTTTTTCCCTGCAG
Seq C2 exon
GCTGAGGAGCTATTCATGGAATTTGCACACAAAGCTTCAGCCTTCAACAACTGGTGTGAGAACGCTGAAGAGGACTTGTCAGAACCTGTGCATTGTGTCTCTCTAAATGAGATCCGGCAGCTGCAGAAGGAGCATGAAGCCTTCTTGGCCTCTATGGTTGGGGCTCAAGAGGATTTCAACTATTTGTTGGCACTAGACCAGCAAATTAAAGCCTTAAATGTGTCCTCCAGTCCTTATACCTGGTTAACAGTGGATGTGCTGGGCAGGATCTGGAAGCACCTACCTGAAATCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003537:ENSRNOT00000004716:43
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:
PF0043516=Spectrin=PD(58.5=88.6)
A:
NA
C2:
PF0043516=Spectrin=PU(91.4=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]