RnoINT0010321 @ rn6
Intron Retention
Gene
ENSRNOG00000046890 | Abca6
Description
ATP binding cassette subfamily A member 6 [Source:RGD Symbol;Acc:1308998]
Coordinates
chr10:98513618-98515032:-
Coord C1 exon
chr10:98514916-98515032
Coord A exon
chr10:98513802-98514915
Coord C2 exon
chr10:98513618-98513801
Length
1114 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAA
5' ss Score
4.51
3' ss Seq
ACCCATGTGTGTTCACACAGACT
3' ss Score
7.41
Exon sequences
Seq C1 exon
AGTTCTTCAGTGATCTCGATAAATATTCTGGCCAGGGCTTGATGAATTATGAAGTCTCCATGTCAACTCTGAATGAAGTCTTCATGAACCTGGAAGGAGAACCAAGTACCACACAGG
Seq A exon
GTAAAACTCTCTGCATACTCCATGAAATCAGTTAATCAAAGGCCACGTATCGGTTTAGCTTTTGTGACTCTTTAAGGAGGGTGACCACTGTAACCGTGGCTTCCTTGTTTGATGTGTGCTCTTGTTTTTCCTGACCTCACAGGTACAGCTAGGTCTATTTTTAGTGTTGATAAATTACTCTTTGGAAAACTAACAGCTTAGGATTACAGCAGTTCTATCTCCTGATGGGACGGTTTGTTGGGTTCTTCAAGGCATTTAGTGTTCTTAGTCAGAGGTATGGGGGCTGGCCATTAACTTCTTATAAAGATCGTTTCTTGCTTGTTAAGAGAGAAGGCCTACATGGAGAGAATTCTTAACAACTTCCAAGTAGTTTCATGGGACACGATAACTGTCCTTTCTGGAGCGTTTCCTTTTACAGATAGTTTGTTCAAGGTAGACAGACACTAGGATATACCCATATCTCATTACTGTCATAATTCTTTCAGTAAGTGATTGATACCATTTTGCAGAGGATAAATTCAGATTTACGAATAGTTAGATGATTATTCAGAAGCCCTTCTGCTCATAGCTCATGGATCTGGACTGCATAGCTGTGTTAAATATTTCCAGAGCTGATGATGTTTTCCTCACAAGTCCAAGTCATTGACACCGTAGAATTAAGTATTTAGGCATTGACAACTGCTGATCCCAGTGAAGAGGATGATATTTGAACTCCTGTGGGATAGTATTACAATTAAACATTTGCCTTTTCAATGGCCAAGCATAGCCAAATTACCCCTCTTCTGAATTCTAGTTTTGTTATATATATAGCAATATGTTCTCAGGGAGTTTTGATATTATGCTGCTTTCGTACCATGCTTGCAGTACAACTCAAGACATTTTTACTAATTTAAAAATGTTCACTATATTGCAATTTATAAAATATAACTATAGAAAAGGAAAATCCCGAAGGTGGTGGTGTTACAATAAGTTAATGAGGTATTGAAAATATTTAAATAATTACTTTGAATAAAAGTGTCAACATAAGATCAGACATAAGGTAATTTAAATTATTTTATGAAGGAAAGTTCGCTATGCCTTAGGATAGTCACAATACCCATGTGTGTTCACACAG
Seq C2 exon
ACTTTGAGAAAGGGGAGACCCTCACAGACTCTGACAGCTTAAATGAAATGGAGGTGGCTCCCCCTTCCCTCTCTAAAGCCCAGAAGACCATGAGCGCTATGAGCCTGTGGAGAATGCAGGTCTGTGCCATAGCACGGCTTCGCGTCCTAAAACTACGGCGAGAGAGGAAAGCATTTCTAACCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046890:ENSRNOT00000073149:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.280
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(1.4=8.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGATCTCGATAAATATTCTGGCC
R:
AAGGTTAGAAATGCTTTCCTCTCTCG
Band lengths:
294-1408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]