ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatcttggcttctgaatacgcatgcaccgaaatttgtgttctaatgcaggatagccagcattgtatttatcctgtttttgccagattttggtcca...

Basic information

species	Zea mays
transcript	GRMZM2G069008_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G069008_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os06g03910.1 (Oryza sativa), 5'ss of exon 4

GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatcttggcttctgaatacgcatgcaccgaaatttgtgtt-ctaatgcaggatagccagcattgtatttatcctgtttttgccagattttggtcca---------------------------------------------------------------------------------------
|||||||||||| ||||||||||  | ||||| || ||||||||||||||||| || ||||| || |||||||||||||| |||||||||||||||||||||   | || |   ||   |      ||  | |||| |  |  || ||  |||  |   | | | |  ||| || ||||||||  |||||| ||                                                                                       
GTTAGAGTTCCTGTTGGAAAATTTATATTGGAACTACCTGCTGGGATGCTAGACGATGAAAAGGGAGATTTTGTTGGCACTGCAGTCCGTGAGgttagtatccctgtttttctttatcta------gaggtatgtgctgttgttggagattagtaatgctagcactcgtccggtctttgccag--tttggttcacagaccatagtaatactgtatataacattgagtcagaagttcaccatatttgaagtatagtgataaagggtctttcattactgacag

upper sequence: GRMZM2G069008_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G04150.1 (Glycine max), 5'ss of exon 5

GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatcttggcttctgaatacgcatgcaccgaa-atttgtgttctaatgcaggatag--ccagcattgtatttatcctg-tttttgccagattttggtcca----------------------------------------------------------------------------
|  || |||||| |||||| | |  | |||||  |||||||||| ||| | ||||| || ||||||||||||||||| || ||||| ||||||||   | |||      ||     | ||| |||     |||| |||| | || ||     |  |    | || || | |  ||   |||  ||  | |  |||                                                                              
GCAAGGGTTCCTGTTGGAAGAATTATTTTGGAATTGCCTGCTGGAATGTTGGATGATGACAAAGGTGATTTTGTTGGTACTGCAGTTCGTGAGgtctatttctctctccct-----ctcatccactacttatttttgttttgatacatagctgtactgaaagtgcatgttttatggcctttttcacttgtatgtctgacatttttatttgtctttcctagtgatgtaactgttttaaattacataatttttcttgtatttatgactatgatag

upper sequence: GRMZM2G069008_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G04160.1 (Glycine max), 5'ss of exon 5

GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatcttg--gcttctgaa--------------tacgcatgcaccgaa---atttgtgttctaatgcagg---atagccagcattgtatttatcctgtttttgccagattttggtcca------------------------------------------------------------------
|  || |||||| |||||| |  | | |||||  |||||||||| ||| | ||||| || ||||||||||||||||| || ||||| ||||||||   | |||    || ||| |               ||  ||| |  |  |   | |   ||| || || | |   ||           | ||   | ||| | | ||| |||||  |                                                                     
GCAAGGGTTCCTGTTGGAAGAAACATTTTGGAATTGCCTGCTGGAATGTTGGATGATGACAAAGGTGATTTTGTTGGTACTGCAGTGCGTGAGgtctatttctctctgcctctcatcctctccctttttttatacatacctctcacccactctagttgtactggaagtgcatgttttatggccttttccacttgtatgtcccacatttttatttgtctttgctagtgatgtagtagctatcttaaactatacatggtttcttgtatttatgactttgatag

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|78087423|gb|DV515816.1|DV515816

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|15215527|gb|BI431332.1|BI431332

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|148991429|gb|EE032931.2|EE032931

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|45847993|gb|CN071936.1|CN071936

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|149074764|gb|EE163194.2|EE163194

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|148942502|gb|EC887517.2|EC887517

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|91054277|gb|EB164695.1|EB164695

EST:     GGATGCTAGATGACGAAAAAGGTGACTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|29544119|gb|CB604499.1|CB604499

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|149096585|gb|EE182343.2|EE182343

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|149111714|gb|EE190861.2|EE190861

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|78082236|gb|DV510648.1|DV510648

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|113703128|gb|EE680632.1|EE680632

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|29543762|gb|CB604142.1|CB604142

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

EST: gi|31355362|gb|CD439719.1|CD439719

EST:     GGATGCTAGATGACGAAAAAGGTGATTTTGTTGTTTTTTCAGTCCGTGAG                         GTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT
genomic: GGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTT

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: 48 (upstream exon), 49 (downstream exon)
Score: 137

GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAGgttagtatct ... ttgctggcagGTGGAAGAAGAGACTGGTATAAAGCTGAATATAGAAGACATGGTTGATCTTACGGCACTGCTGGACCCTGCTACTGGAGGTCGAATGCTACCATCACCG

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 169

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 118