ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtaattacctcactgaattgaaattagtggccacctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG

Basic information

species	Zea mays
transcript	GRMZM2G464137_T03
intron #	3
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G464137_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g57400.1 (Oryza sativa), 3'ss of exon 3

gtaattacctcactgaattgaaattagtggccacctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG
|||| || ||  |   ||| |||  || |    | | | |||| |||   ||  |||  ||  ||    |    | ||| ||  ||||||||||| |||||||| || |||||  ||||||||||||||||||||||||| |||||||||||   || ||| |||||||| ||||||||||||||||  
gtaactatctttccagatt-aaaccagcg----cttttcttttcttttcatat-tggagatgatggacat----gatttgcatatgcagGTTTATTGAGAGAGCACAGGCTCTTCTTCATGGAGATCTCCACACTGGTTCCATCATGGTGACACCAGATTCTACTCAAGTGATTGATCCAGAATTTGCT

upper sequence: GRMZM2G464137_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g57410.1 (Oryza sativa), 3'ss of exon 3

gtaattacctcactgaattgaaattagtggccacctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG
|||| || ||| |   ||| |||  || |      | | |||  |||   |   |||  ||  ||    |    | ||| ||  ||||||||||| |||||||| |||||| |  |||||||||||||||||||| |||| |||||||||||   || ||| |||||||| ||||||||||||||||  
gtaactagctctcctgatt-aaaccagcg----tttctctttccttttcat---tggagatgatggacat----gatttgcatatgcagGTTTATTGAGAGAGCACAAGCTTTTCTTCATGGAGATCTCCACACTAGTTCCATCATGGTGACACCAGATTCTACTCAAGTGATTGATCCAGAATTTGCT

upper sequence: GRMZM2G464137_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G45520.1 (Glycine max), 3'ss of exon 3

gtaattacctcactgaattgaaattagtggccacctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG
|| | | ||| | |||| | || | | ||  |  | |  |||   |||| |     |||    ||  ||||             ||||   || | | || | ||||     ||  |      |  |||   || |  |   ||||    ||| ||                                 
gttact-cctgaatgaactcaagtcattgatc--cagAATTTGCATTCTAT-----GGACCAATGGGTTTTGACA-----TGGGTGCA---TTCTTGGGAAACCTCA--TCTTGGCTTTCTATG--CTCAGGACGGACTTGTTCAT--CAACCCAA---------------------------------

upper sequence: GRMZM2G464137_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 3

--gtaattacctcactgaattgaaattagtggccacctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG
   | ||||| |||||   ||  |   | |     |    ||||||||  |  |  |     || |     ||| || |      ||| ||||| || ||||| || || || || || ||||||||||| |||||||||||| | ||||| |||   |  ||||||||||| ||||||||||||||||  
gtattattac-tcacttttttttacccattatatgcagtagttttgttgttagattttttctttataggaatttatgttc-----ctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA

upper sequence: GRMZM2G464137_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 3

gtaattacctcactgaattgaaattagtggccacctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG
|||  |   |  || | ||     || |  || | |  | |||| |   |||  |  |||     |    || ||  ||        |||||    || |||||||||||| | || ||||| ||||| || ||||||||| ||||||| ||  ||| |||||| ||||| || |||||||| |||  |
gtatgtgtttt-ctcatttcccggtaatttccgc-taggatttgcta--gtatctctgaaccacca----ttgtgtattatgttgttagGTTCTGTGAAAGAGCTCAAGCTTTAATACATGGTGATCTTCATACTGGTTCTGTCATGGTTACTCAAGATTCAACGCAAGTTATAGATCCAGAGTTTTCG

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|76925788|gb|DV170594.1|DV170594

EST:     TTCGCGAGGATGATGAGCTNCA-GTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: TTCGCGAGGATGATGAGCT-CAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|148931973|gb|EC875233.2|EC875233

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGGAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|148962543|gb|EE013418.2|EE013418

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|71432514|gb|DR813564.1|DR813564

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|148969592|gb|EE020430.2|EE020430

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCTACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|32929857|gb|CF034669.1|CF034669

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|76913361|gb|DV165093.1|DV165093

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGA
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGA

EST: gi|76292759|gb|DV032327.1|DV032327

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTNCA-GCTCTGATTCATGGAGATCTCCACACTGGTT
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCT-CAAGCTCTGATTCATGGAGATCTCCACACTGGTT

EST: gi|78114422|gb|DV532811.1|DV532811

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCCCACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|149048896|gb|EE048395.2|EE048395

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|32929601|gb|CF034413.1|CF034413

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|32928909|gb|CF033721.1|CF033721

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|148938568|gb|EC882889.2|EC882889

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGGTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|149080185|gb|EE169203.2|EE169203

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTC

EST: gi|149100125|gb|EE186180.2|EE186180

EST:     GTTCGCGAGGATGATGAGCTCANGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAGC
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGC

EST: gi|71430317|gb|DR811367.1|DR811367

EST:     GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGAT                         GTTTATCGAGAGAG
genomic: GTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAG

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: 110

CCAAATTTAATCGGTGGACCTCGCCTTATCTCGACAAAGATGCTGAGGCAGTTCGCGAGGATGATGAGCTCAAGTTGGAAGTAGCTGGGCTGAAATCGATgtaattacct ... ccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 304

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 283

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 63

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG