ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATAAGAGAAATAGTCGATACTGATTTATTTGGTTCACAAGAGAATAGGAAGTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctttctctgaaaaattacttggtgtttaccatataatatactcatataatattaccgcagctattagcttcaaaggctgatacagaaaactag...

Basic information

species	Zea mays
transcript	GRMZM2G146041_T01
intron #	7
splice site	5'
intron type	U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|19351728|gb|BM896260.1|BM896260

EST:     GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTG                         GGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG
genomic: GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG

EST: gi|87152405|gb|DY397194.1|DY397194

EST:     GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTG                         GGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG
genomic: GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG

EST: gi|19821942|gb|BQ047966.1|BQ047966

EST:     GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTG                         GGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG
genomic: GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG

EST: gi|67042856|gb|CO469111.1|CO469111

EST:     GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTG                         GGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG
genomic: GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG

EST: gi|78027270|gb|DV495657.1|DV495657

EST:     TTTTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTG                         GGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG
genomic: GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG

EST: gi|12973731|gb|BG268627.1|BG268627

EST:     GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTG                         GGATAGTTTATGCCCCCCGCAACGAGGATGTCGTGAACATGAGGACAGACG
genomic: GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG

EST: gi|211474366|gb|FL184467.1|FL184467

EST:     GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTG                         GGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG
genomic: GTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACG

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 48 (upstream exon), 44 (downstream exon)
Score: 66

ATAAGAGAAATAGTCGATACTGATTTATTTGGTTCACAAGAGAATAGGAAGTCTTCCACAGCAACAACACATACGGATGATCAGAAATTGGTTGATTTTGgtatgctctt ... tgtctaacagGGATAGTTTATGCCCACCGCAACGAGGATGTCGTGAACATGAGGACAGACGGAAGAGAGAAAGGTGGAGCAGACGAGACTGTCCAGAGCTCCTTAGAGGA

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 34

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 42

Block sizes: 49 (upstream exon), 44 (downstream exon)
Score: 42

Data associated with selected splice site

Sequence

Basic information

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

RNA-Seq data