ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCAAGGACTGAACTTATATCTCAAGAACTTGGATGATAGCATTGGAGATGATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgatcagcttttacgctttgcaatcatcattatttccctcacctgtcttttgatggtatgtgctggctaactatatatgtgaaacag

Basic information

species	Zea mays
transcript	GRMZM2G352129_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G352129_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os04g42600.2 (Oryza sativa), 5'ss of exon 3

TCAAGGACTGAACTTATATCTCAAGAACTTGGATGATAGCATTGGAGATGATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgatcagcttttacgctttgcaatcatcattatttccctcacctgtcttttgatggtatgtgctggctaactatatatgtgaaacag
||||||||||||||||||  | ||||| ||||||||||||||||| ||||| || ||| ||||||||||||| || | ||||||||||||||||||||||||||||    ||  |  | | | ||     | ||| | ||        |||   | ||||  ||        ||||||  || |||   ||||
TCAAGGACTGAACTTATACATGAAGAATTTGGATGATAGCATTGGGGATGACCAGCTTTGTGAATTGTTCTCTAACTATGGCAAAATTACTTCATGCAAGgtgatt----catgtcatccaccttttttccttcacttttgtttcttactgatatatgattata-------actaactggatttgtttgacag

upper sequence: GRMZM2G352129_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA17G35890.1 (Glycine max), 5'ss of exon 3

-TCAAGGACTGAACTTATATCTCAAGAACTTGGATGATAGCATTGGAGATGATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgatcagcttttacgctttgcaatcatcattatttccctcacctgtcttttgatggtatgtgctggctaactatat-atgtgaaacag--------
 || |||  ||||||| ||||||||||||||||||||||  ||  | |||||  |||||   ||| ||||  |  | | ||| | ||| ||||| ||||||||| | | |    | |||   ||||||    ||  ||||   |    | | |   ||| | | |  |    || |   |||| |  |   ||          
ATCCAGGTTTGAACTTGTATCTCAAGAACTTGGATGATACAATCAGTGATGAAAAACTTAAGGAAATGTTTGCCGACTATGGTACAATAACTTCTTGCAAggtg-tgtaaatgtcattt---ctttgctggtat-gttatggtcaggtctttttcattgttagcagatttaagcaatgcatatcacatctcacctattctgta

upper sequence: GRMZM2G352129_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv07s0031g00210.t01 (Vitis vinifera), 5'ss of exon 3

TCAAGGACTGAACTTATATCTCAAGAACTTGGATGATAGCATTGGAGATGATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgatcagcttttacgctttg-caatcatcattatttccctcacctgtcttttgat----ggtatgtgctggctaactatatatgtgaaacag----------------------
|||||||||||| |||||| | || ||| | |||||||||||||  |||||| || |  | ||||| |||||| | ||||| |  |||||||||||||||||   |  |    |   |   | |||   || |       ||     | | ||  |||||      || | || |||  |||  |||   |  |                          
TCAAGGACTGAATTTATATGTAAAAAACCTAGATGATAGCATTGCTGATGATAAATTAAGGGAATTATTCTCAGAATTTGGGACTATTACTTCATGCAAGgtacataaaatgtcccatgtcccttgattatgaattcgtgttgtgctatcagttatttgaatataagtgtttgttggtaaaccttattcttttattttctcccttgtgagtattcaacag

upper sequence: GRMZM2G352129_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv18s0001g10170.t01 (Vitis vinifera), 5'ss of exon 3

TCAAGGACTGAACTTATATCTCAAGAACTTGGATGATAGCATTGGAGATGATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtg---atttgatcagctt--------------ttacgctttgcaatcatcattatttccctcacctgtcttttgatggtatgtgctggctaactatatatgtgaaacag-----------
||||||  ||||||| ||| | || |||||||| ||||||||||| |||||| ||||    |||||||||||| | ||||| | |||||| |||||||||||    |  || ||  | |              |||    ||  | || | || |  | |||||||  ||| ||| ||| | ||| |    || ||  |   ||                 
TCAAGGGGTGAACTTGTATATTAAAAACTTGGACGATAGCATTGGCGATGATAAACTAAAGGAATTGTTCTCAGAGTTTGGTACAATTACCTCATGCAAGgtttgcaaatgttctccctcaaaaagaaatatattagaaattagagtcctaatcaaatgcctcacccctctcttggtggca-gtggtctaaaattagttccctgttctgatgattttacag

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|211179932|gb|FL049123.1|FL049123

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|32850911|gb|CD990592.1|CD990592

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211205761|gb|FL339666.1|FL339666

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|13516039|gb|BG518315.1|BG518315

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGNTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211113500|gb|FL364716.1|FL364716

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|32929766|gb|CF034578.1|CF034578

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGACCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211182327|gb|FL049124.1|FL049124

EST:     ATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|32928646|gb|CF033458.1|CF033458

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGACCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211193131|gb|FL329966.1|FL329966

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211157245|gb|FL334278.1|FL334278

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211461945|gb|FL313813.1|FL313813

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211437282|gb|FL309165.1|FL309165

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|13490826|gb|BG517590.1|BG517590

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|18963650|gb|BM660554.1|BM660554

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|32788190|gb|CD940426.1|CD940426

EST:     ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTGGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: ATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

EST: gi|211179931|gb|FL049122.1|FL049122

EST:     TTCTCAAATTTTGGCAAAATTACTTCATGCAAG                         GTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC
genomic: TTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTC

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: 49 (upstream exon), 49 (downstream exon)
Score: 348

TCAAGGACTGAACTTATATCTCAAGAACTTGGATGATAGCATTGGAGATGATCAACTTCGTGAATTGTTCTCAAATTTTGGCAAAATTACTTCATGCAAGgtgatttgat ... tgtgaaacagGTGATGCGTGATCAAAATGGTCTTAGCAAAGGCTCTGGATTTGTTGCTTTCTCAACTCGTGAGGAAGCATCTCAGGCT

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 273

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 245