ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TACCTTTGGACCAACATTCCGGGCAGAGAACTCACATACGTCACGACATTTGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagctgaatcgaatttgtcttcaattgcagttgaattgattttcctcggtacaaaatatccgactatgaaagttagtaaaaacagtctttgaagtgatagtatgtttaactgttctgcag

Basic information

species	Zea mays
transcript	GRMZM2G083836_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G083836_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g27520.2 (Oryza sativa), 5'ss of exon 2

TACCTTTGGACCAACATTCCGGGCAGAGAACTCACATACGTCACGACATTTGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagctgaatcgaatttgtcttcaattgcagttgaattgattttcctcgg--tacaaaatatccgactat-------gaaagttagtaaaaacagtctttgaagtgatagtatgtttaactgttctgcag
||||||||||||||||||||| ||||| ||||| ||||| ||||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||||| ||| |   |||  ||||  |||     ||| ||||| |  ||   ||  |  ||  ||     | |||||        | | |  |||  ||  ||  ||  | ||||| | ||   ||||||  | |||
TACCTTTGGACCAACATTCCGTGCAGAAAACTCCCATACATCACGACATTTGGCAGAGTTTTGGATGGTTGAACCAGAAATCGCATTTGCTAACTTGCAGgtaaataatccagatcatattttcctttg-cagcatttgaaatatttcatcttagcttattaatctatctactattggttctaagattctgtatgaattgttatttca-tgatattttggcgaactgtgttccag

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|19770482|gb|BQ035203.1|BQ035203

EST:     TGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG
genomic: TGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG

EST: gi|20300675|gb|BQ163618.1|BQ163618

EST:     TGGCAGAGTTTTGGATGGGTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAAATATGTACAGGACCTTTGCAAGTGGCTG
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG

EST: gi|16137323|gb|BI894188.1|BI894188

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAA-TATGTACAGTACCTTTGCAAGTGGCTG
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG

EST: gi|19770139|gb|BQ034860.1|BQ034860

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG

EST: gi|32929176|gb|CF033988.1|CF033988

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAAATATGTA
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTA

EST: gi|7238163|gb|AW573385.1|AW573385

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTG

EST: gi|32929947|gb|CF034759.1|CF034759

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGCACATGAACTGTGCAGAAAAATATGT
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATG-ACATGAACTGTGCAGAAAAATATGT

EST: gi|32850051|gb|CD989732.1|CD989732

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAAATATGTA
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTA

EST: gi|32929849|gb|CF034661.1|CF034661

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATCACATGAACTGTGCAGAAAAGATATGT
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAA-ATATGT

EST: gi|32929551|gb|CF034363.1|CF034363

EST:     TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAG                         GATGACATGAACTGTGCAGAAAAATATGTAC
genomic: TGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTAC

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), 48 (downstream exon)
Score: 231

TACCTTTGGACCAACATTCCGGGCAGAGAACTCACATACGTCACGACATTTGGCAGAGTTTTGGATGGTTGAACCGGAAATCGCATTTGCAAACTTGCAGgtaactaagc ... tgttctgcagGATGACATGAACTGTGCAGAAAAATATGTACAGTACCTTTGCAAGTGGCTGCTTGACCATTGCCAGGAAGATATGGAGTTTATGGTGAAAAATTATGATA

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

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 294