ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGGGAATACTTGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactaccttatgcagcaattcctgttttccccatatcttttttatatacactggataggtatccttagcatattttctgttgctgattattaattttaagtgctgaacaattctatactaaaggtgatttaaattgtcataatatag

Basic information

species	Zea mays
transcript	GRMZM2G075101_T03
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G075101_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g64920.1 (Oryza sativa), 5'ss of exon 7

TAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGGGAATACTTGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactaccttatgcagcaattcctgttttc--ccca------tatcttttttatatacact-ggataggtatccttagcata------ttttctgttgctgattattaattttaagtgctgaacaattctatactaaaggtgatttaaat-tgtcataatatag
|||||| |||||||||||||| ||||||||||| ||  |||||||| | |||||||| ||  | ||||| || ||||||||||| |  || || |||||||||| || ||||||||    || || |||||  ||||       ||  || |  | |||  |  ||||  |||  ||  |||       ||||||| |   | ||   |  |||| ||| |    | || ||      || ||||  || |   |   | | |||
TAATCCGAATGAAGACTATGCCGAGACAGAGTTAAAACTGAGGGAACATTTGCAATCGTTCCTAGAAACAGTAAAATCCTTCAATATGATCTACACTAAGgtgaatatcttatgcaatggtttcttttttcttcccaatttcccatacttctgctgtacgttcagataaatatttttgacatgatatctttttctgctaacggttgccatctttatgtgttttg-agttttacttgttagatgatagaattgcttttcattgtag

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|93012884|gb|EB638404.1|EB638404

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACCCAATATATATTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|37398489|gb|CF636559.1|CF636559

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|74246322|gb|DT654236.1|DT654236

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|71761514|gb|DR959451.1|DR959451

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|32942644|gb|CF047463.1|CF047463

EST:     GTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: GTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|6601609|gb|AW256155.1|AW256155

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACCCAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|71773508|gb|DR971408.1|DR971408

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|76020456|gb|DT947626.1|DT947626

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|37388177|gb|CF631295.1|CF631295

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|31364678|gb|CD449033.1|CD449033

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|89250411|gb|DY622197.1|DY622197

EST:     TGCAATCATTTTTGGAAACGGTTAAATCCTTCACCACAATATATACTAAG                         GAAATCCATCCTTGGACCCCCATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: TGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

EST: gi|32942426|gb|CF047245.1|CF047245

EST:     GTTAAATCCTTCAACACAATATATACTAAG                         GAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC
genomic: GTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTC

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: 47 (upstream exon), 46 (downstream exon)
Score: 211

TAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGGGAATACTTGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATATATACTAAGgtgactacct ... cataatatagGAAATCCATCCTTGGACCCACATGATGGAAGTGCCACAATTGCATGGCTTCGGTCCAGCTGCTAATCGCCTCTTGGAGGCATATAATACCCTTTTAAAG

Block sizes: 45 (upstream exon), 46 (downstream exon)
Score: 101

Block sizes: 46 (upstream exon), 44 (downstream exon)
Score: 99