ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAACGTGATGCCGACTACAAGGGACAAGTACAGGCAGTCACGGCTGCAGGGGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccatagctacgcgtttcagattagttatactacctggtcgagttgagcatctatttaggccgagtaaacatctcatgtggcgatgctggtgcag

Basic information

species	Zea mays
transcript	GRMZM2G113726_T01
intron #	2
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|47961405|gb|CN844114.1|CN844114

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC

EST: gi|211200072|gb|FL195839.1|FL195839

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC

EST: gi|5555361|gb|AI881312.1|AI881312

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC

EST: gi|211200069|gb|FL195836.1|FL195836

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGGC-AACTCTACTACGAG
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAG

EST: gi|60349121|gb|DN216094.1|DN216094

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC

EST: gi|32919928|gb|CF024740.1|CF024740

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC

EST: gi|60398028|gb|DN230844.1|DN230844

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC

EST: gi|32795211|gb|CD947447.1|CD947447

EST:     GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAG                         GAATGCATGCCTGCAGAGAAAGACCAACTCTACTACGAGTTTCAGCACAGC
genomic: GGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGC

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: 46 (upstream exon), 49 (downstream exon)
Score: 74

GAACGTGATGCCGACTACAAGGGACAAGTACAGGCAGTCACGGCTGCAGGGGTACGCCAACTTTGAGAACGTGCCTAATTCCGGAAGGCTTTCTGAGAAGgcatgccata ... gctggtgcagGAATGCATGCCTGCAGAGAAAGGCCAACTCTACTACGAGTTTCAGCACAGCACGAGGTCGGTGAAACCGACCATCCGTCATTTCCAG

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 233

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 205

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 82

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