ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TATCAGGGAAGGCAACATTCTGAAGATGCAGCGCAAGCAGAAGCCATGCACTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAGgtatgcgccagaacccgactccttgaggcgatgttccccgcaggggcaagagtctctgaagctgcctgtctgtctgtctgtgtgtgttctcgctttctttcgcag

Basic information

species	Zea mays
transcript	GRMZM2G043348_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|78076871|gb|DV505305.1|DV505305

EST:     CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

EST: gi|33099431|gb|CF059391.1|CF059391

EST:     ACTACCGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCCTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: ACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

EST: gi|33099915|gb|CF059875.1|CF059875

EST:     TCCCCTCCCCTCCAACAAAACA-AGTCGGTACTACCGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: TCCCCTCCCCTCCAAC-AAGCAGAGTCGGTACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

EST: gi|78106831|gb|DV525249.1|DV525249

EST:     CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

EST: gi|33100467|gb|CF060427.1|CF060427

EST:     TACTACCGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: TACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

EST: gi|18176244|gb|BM351268.1|BM351268

EST:     CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

EST: gi|50338523|gb|CO533649.1|CO533649

EST:     CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: CTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

EST: gi|161586720|gb|EY957692.1|EY957692

EST:     CGGCCTCGGGTCAAG                         GGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG
genomic: CGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAG

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: 43 (upstream exon), 45 (downstream exon)
Score: 57

TATCAGGGAAGGCAACATTCTGAAGATGCAGCGCAAGCAGAAGCCATGCACTCCCCTCCCCTCCAACAAGCAGAGTCGGTACTACCGGCCTCGGGTCAAGgtatgcgcca ... tctttcgcagGGGAGGTTTGTCAGCAAGGCTTGTTTCCTCCAGCGACAGCAAGCGTTAGAGAAGGAGAGCTAGAGAAAGATGGATCCTGCTCCAAGGCGCATTTCTGGGG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 63

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 114

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 70

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