ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CATTTGATAAGTAAAAACTGCAACCATTTCTGTGAGGATATCTGCAAAAGGTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttcttgaaacatatgctttctcagccattaatattgctctccaagagttgctgcagagtttgaatatctaaataggcatctgttttttcctca...

Basic information

species	Zea mays
transcript	GRMZM2G049382_T02
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G049382_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA07G20500.1 (Glycine max), 5'ss of exon 3

CATTTGATAAGTAAAAACTGCAACCATTTCTGTGAGGATATCTGCAAAAGGTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgta---ggagttcttgaaa--catatgctttctcagccattaatattgctctccaagagttgctgcagagtttgaatatctaaataggcatctgttttttcctca
|| |||||    || || ||||||||||||||||||||||| ||  | | | | ||||| |||| ||||||||||||||| ||||| ||||| ||||| ||||   |   || || ||   || || | ||||       | | ||||     |   ||   | | | ||     | ||   | |||   | || || ||||| |
CACTTGATTGTGAAGAATTGCAACCATTTCTGTGAGGATATTTGTTACAAGCTAACAGGCAATTCTATTCCAAAATGGGTCAATCGTCTTGCAAGAATAGgtatatgacatttttaaactccagatccattcttttatgattaaattgtatcactttagagtcggtaaagc----agatggcattagatgt-tggttcttcctga

upper sequence: GRMZM2G049382_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv03s0063g02130.t01 (Vitis vinifera), 5'ss of exon 2

CATTTGATAAGTAAAAACTGCAACCATTTCTGTGAGGATATCTGCAAAAGGTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttcttgaaacatatgctttctcagccattaatattgctctccaagagttgctgcagagtttgaatatctaaataggcatctgt--tttttcctca----
|| ||||| | ||| ||||||||||||||||||||||||||||| || | | |||| || ||    |||||||||||||| |||||||| || ||||| ||||     | ||| |    |    | || | |    |  ||   |  |   ||  |      |||  | ||| | ||| | ||  |  ||  || ||   ||    
CACTTGATTATTAAGAACTGCAACCATTTCTGTGAGGATATCTGTAACAAGCTGACTGGGAACCGAATTCCAAAATGGGTCAATCGACTAGCAAGAATAGgta-----ttttgcacagcacctctactgatctcacaccatctattactttgacattaacttgagcctcaat-tataagttggttttggtgattgttaagcaaact

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|76286587|gb|DV026155.1|DV026155

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCT-GAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|93016747|gb|EB642267.1|EB642267

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGNTTTGCA-CTGCATTCTA
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTG-TTTGCAACTGCATTCTA

EST: gi|71775361|gb|DR973239.1|DR973239

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|101389927|gb|EB816894.1|EB816894

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCT-GAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|71444264|gb|DR825314.1|DR825314

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTTCA-GATCAACGCGGC
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCT-CAAGATCAACGCGGC

EST: gi|76015122|gb|DT942292.1|DT942292

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|71437491|gb|DR818541.1|DR818541

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|74241229|gb|DT649143.1|DT649143

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCC
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCC-

EST: gi|78109421|gb|DV527837.1|DV527837

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|76286586|gb|DV026154.1|DV026154

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCT-GAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|30088173|gb|CB886378.1|CB886378

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|93014379|gb|EB639899.1|EB639899

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAG

EST: gi|78109677|gb|DV528093.1|DV528093

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|37380498|gb|CF627065.1|CF627065

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|101389925|gb|EB816893.1|EB816893

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCT-GAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|149081435|gb|EE170555.2|EE170555

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|94476135|gb|EB705093.1|EB705093

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

EST: gi|78109676|gb|DV528092.1|DV528092

EST:     GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGG                         GTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG
genomic: GTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCG

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: 65

CATTTGATAAGTAAAAACTGCAACCATTTCTGTGAGGATATCTGCAAAAGGTTGACAGGAAATTTTATTCCAAAATGGGTGAATCGACTTGCTAGAATGGgtaggagttc ... ttatgtgcagGTGCTGTTTGCAACTGCATTCTACCAGAGTCCCTCAAGATCAACGCGGCCGGTCATGACCCAGCTTCTCGAGCTGAAGATAGCGAGAGAAAAATGCTGAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 57

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 57