RnoINT0000857 @ rn6

Intron Retention

Gene

ENSRNOG00000046602 | AABR07006030.1

Description

NA

Coordinates

chr1:214687733-214687867:+

Coord C1 exon

chr1:214687733-214687778

Coord A exon

chr1:214687779-214687827

Coord C2 exon

chr1:214687828-214687867

Length

49 bp

Sequences

Splice sites

5' ss Seq

CAGGTATGC

5' ss Score

9.37

3' ss Seq

TCCCTAGTCCTGCTCGATGCATC

3' ss Score

-10.61

Exon sequences

Seq C1 exon

CAGTATCAGGGCCTGTGGCCTCAGAGGAAATCCACCTGCAGTCCAG

Seq A exon

GTATGCACCCAAGATGATCCCTGCTGCTTTCCCTAGTCCTGCTCGATGC

Seq C2 exon

ATCCCAGCCAGCCTTTAGCATCCTTTTCAGAGCTGTGCCG

VastDB Features

Vast-tools module Information

Secondary ID

ENSRNOG00000046602:ENSRNOT00000075002:56

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:

NO

A:

NA

C2:

NO

Main Inclusion Isoform:

NA

Main Skipping Isoform:

ENSRNOP00000064975

Other Inclusion Isoforms:

NA

Other Skipping Isoforms:

NA

Associated events

Conservation

Human

(hg38)

No conservation detected

Human

(hg19)

chr11:1099281-1099418

LOW PSI

HsaINT0106755

(MUC2)

Mouse

(mm10)

No conservation detected

Mouse

(mm9)

chr7:148935279-148935409

LOW PSI

MmuINT0102355

(Muc2)

Cow

(bosTau6)

chrUn_GJ059601:2273-2391

Chicken

(galGal4)

chr5:14301621-14301934

LOW PSI

GgaINT0058515

([1])

Chicken

(galGal3)

chr5:16015107-16015420

LOW PSI

GgaINT0058515

([2])

Zebrafish

(danRer10)

chr25:8311862-8314686

LOW PSI

DreINT0099059

(muc5.1)

Zebrafish

(danRer10)

chr25:8169858-8169950

LOW PSI

DreINT0014882

(MUC5B (2 of 3))

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

TGTGGCCTCAGAGGAAATCCA

R:

CGGCACAGCTCTGAAAAGGAT

Band lengths:

73-122

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]