ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gttcgtgctcgtccttcgtctaccttttgtgcacgtatgtgtgttaacattcatgcctctgagacggtattaaatttaaatgcgctcttgctgctgtcttgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAGCGGATCCACCAGGGCCACGCCTTCAATGGCAAGCGGACCAAAACGGCTC

Basic information

species	Zea mays
transcript	GRMZM2G050268_T01
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G050268_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g36740.1 (Oryza sativa), 3'ss of exon 2

gttcgtgctcgtccttcgtctaccttttgtgcacgtatgtgtgttaacattcatgcctctgagacggtattaaatttaaatgcgctcttgctgctgtcttgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAGCGGATCCACCAGGGCCACGCCTTCAATGGCAAGCGGACCAAAACGGCTC
                        ||   | | | | |     ||  |   |||  |||||  ||  |         ||       | ||  | ||  |   || ||||||||||||||||||||||||||| ||||||||||||||||||||| ||||||  ||||||||||||||||||||||| |||||||| ||||| ||||| |
-----------------------gttcaatccccctcttccccttctcgc-cattgctctgcaacaatgcgcgcagcaagctgatgcgtgtcgatgaatc--tgagcagAGATGCGGGCGGCTGGACGACCAGATCTCGCTGCTCAAGCACAAGCTGCAGCTCATCCACCAGGGCCACGCCTTCAACGGCAAGCGCACCAAGACGGCGC

upper sequence: GRMZM2G050268_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ30150 (Selaginella moellendorffii), 3'ss of exon 2

gttcgtgctcgtccttcgtctaccttttgtgcacgtatgtgtgttaacattcatgcctctgagacggtattaaatttaaatgcgctcttgc-tgctgtcttgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAGCGGATCCACCAGGGCCACGCCTTCAATGGCAAGCGGACCAAAACGGCTC
                           |  || |   | |      | || || | ||||  |||     |  ||  ||  ||   ||||   | |    |    | ||||| || || ||||||||||| || ||| | || |||||||||||| | |||| |||| ||  ||||| |||||||||||||||||||||||| || || |
--------------------------gtaagccccctttttcccccaaatcca-gtctctcggacatgtatcgatgaaatcgctgacttgggcgattctctctctcccagAGGTGTGGCCGGCTGGACGATCAGATCGCTCTCCTCAAGCACAAGCTCCAGCTGATCTACGCGGGCCTCGCCTTCAATGGCAAGCGGACCAAGACCGCGC

upper sequence: GRMZM2G050268_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ08332 (Selaginella moellendorffii), 3'ss of exon 2

gttcgtgctcgtccttcgtctaccttttgtgcacgtatgtgtgttaacattcatgcctctgagacggtattaaatttaaatgcgctcttgc-tgctgtcttgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAGCGGATCCACCAGGGCCACGCCTTCAATGGCAAGCGGACCAAAACGGCTC
                           |  || |   | |      | || || | ||||  |||     |  ||  ||  ||   ||||   | |    |    | ||||| || || ||||||||||| || ||| | || |||||||||||| | |||| |||| ||  ||||| |||||||||||||||||||||||| || || |
--------------------------gtaagccccctttttcccccaaatcca-gtctctcggacatggatcgatgaaatcgctgacttgggcgattctctctctcccagAGGTGTGGCCGGCTGGACGATCAGATCGCTCTCCTCAAGCACAAGCTCCAGCTGATCTACGCGGGCCTCGCCTTCAATGGCAAGCGGACCAAGACCGCGC

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|78113367|gb|DV531759.1|DV531759

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|94479425|gb|EB708383.1|EB708383

EST:     GACCAGGCGCAGGAGTCCCTCCGACAACATCCTCCTTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCT
genomic: GACCAGGCGCAGGAGTCCCTC-GACAACATCCTCCT-CGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCT

EST: gi|76294345|gb|DV033913.1|DV033913

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|76922892|gb|DV169228.1|DV169228

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|89758318|gb|DY687540.1|DY687540

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|37423828|gb|CF649643.1|CF649643

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGC
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGC

EST: gi|74234535|gb|DT642449.1|DT642449

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|71775124|gb|DR973002.1|DR973002

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|211332358|gb|FL287652.1|FL287652

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|89759856|gb|DY688538.1|DY688538

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|148955352|gb|EC900908.2|EC900908

EST:     CCGACCAGGCGCAGGAATCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCCGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|50322683|gb|CO517809.1|CO517809

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|71306833|gb|DR789574.1|DR789574

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|148965097|gb|EE015913.2|EE015913

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|76010983|gb|DT938153.1|DT938153

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|93283827|gb|EB676091.1|EB676091

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|149095665|gb|EE181288.2|EE181288

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|149084073|gb|EE173471.2|EE173471

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|76292412|gb|DV031980.1|DV031980

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|211332357|gb|FL287651.1|FL287651

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|211332356|gb|FL287650.1|FL287650

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|78104441|gb|DV522859.1|DV522859

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

EST: gi|50333368|gb|CO528494.1|CO528494

EST:     CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAG                         AGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG
genomic: CCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAG

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), 49 (downstream exon)
Score: 110

CCGCGCCGAGGAGGCCATCGAGGCCATCAAGTCGCTGCGAAGCCGATGCTCCGACCAGGCGCAGGAGTCCCTCGACAACATCCTCCTCGATCTCTACAAGgttcgtgctc ... tgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAGCGGATCCACCAGGGCCACGCCTTCAATGGCAAGCGGACCAAAACGGCTC

Block sizes: 39 (upstream exon), 35 (downstream exon)
Score: 18

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 18

Block sizes: 28 (upstream exon), 35 (downstream exon)
Score: 2

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gcctctgagacggtattaaatttaaatgcgctcttgctgctgtcttgatgcgcagAGATGCGGGCGGCTGGACGACCAAATCTCGCTGCTCAAGCACAAGTTGCAGCGGATCCACCAGGGCCACGCCTTCAATGGCAAGCGGACCAAAACGGCTC