ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATGGAGCTGGCGGCAAAGGGACTTGGGGCAAACTAATTGAGACTGATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggactattgactctgctaccaacatttgagtgtcaaaagttcaatctcagaagctattgtaaatcatctttttaatttagctcaaagtggttagtatccaaccatacatgtacatcgatgttgatgtctttttgctactcag

Basic information

species	Zea mays
transcript	GRMZM2G412470_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G412470_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os08g02690.1 (Oryza sativa), 5'ss of exon 3

ATGGAGCTGGCGGCAAAGGGACTTGGGGCAAACTAATTGAGACTGATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggactattgactctg-ctaccaacatttgagtgtcaaaagttca-atctc-agaagctattgtaaatcatctttttaatttagctcaaagtggttagtatccaaccatacatgtacatcgatgttgatgtctttttgctactcag
|||| ||||| |||||||| || ||||| ||||| || || || ||  |||| ||||||||||| || ||||| ||||| |||||||||| ||||||||    || ||    || | |   ||  | |    |   |  || |  | || |  | || | |  | |      |||| | || |    | | ||| |                                                
ATGGTGCTGGTGGCAAAGGTACCTGGGGAAAACTTATAGATACAGACACAGATGCATGCCTTGACCGCAATGACCCAAACTATGACAGTGATGAGgtaatatttaatggtcttgaccatgtactctagccacttgcacttttatgtatcgatgaactctagccacttgcacattta-tgtaccgatgaattgtttg------------------------------------------------

upper sequence: GRMZM2G412470_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA05G02910.1 (Glycine max), 5'ss of exon 3

ATGGAGCTGGCGGCAAAGGGACTTGGGGCAAACTAATTGAGACTGATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggactatt----gactctgctaccaacatttg--agtgtcaaaagttcaatctcagaagctattgtaaatcatctttttaatttagc-tcaaagtggttagtatccaaccatacatgtacatcgatgttgatgtctttttgctactcag
|||| ||||| || || || |||||||| ||| |  |||| || |||   |   |   | | || ||  |||||||||||||||||||||| |||||||   |||||    |  | || |   |   ||||  |   |  |   |  ||    ||  ||| |   |||| ||    |  || |||  |||  || |                                                    
ATGGTGCTGGTGGTAAGGGTACTTGGGGAAAATTGCTTGATACAGATATTGTTTCTCACATAGACCGGCATGATCCAAATTATGACAGTGGCGAGgtaaattctattccctgtttttgttggtagtttttggcaacattgattatgtaacactagctgct-tgaaaaataattaaatgcatgtagtatcagtgtag----------------------------------------------------

upper sequence: GRMZM2G412470_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA17G13570.1 (Glycine max), 5'ss of exon 3

ATGGAGCTGGCGGCAAAGGGACTTGGGGCAAACTAATTGAGACTGATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggactattgactc-tgctaccaaca--tttgagtgtcaaaagttcaatctcagaagctattgtaaatcatctttttaatttagctcaaagtggt-tagtatccaaccatacatgtacatcgatgttgatgtctttttgctactcag
|||| ||||| || || || |||||||| ||| |  |||| || |||   ||  |   | | || || ||||||||||||||||||||||| |||||||   || ||  ||  |  |      |  |||  |   ||    ||   |  ||  ||||  |  |||   | | || ||||    |   ||   | |||                                                
ATGGTGCTGGTGGTAAGGGTACTTGGGGAAAATTGCTTGATACAGATATTGATTCTCACATAGACCGGAATGATCCAAATTATGACAGTGGCGAGgtaaattctcttcccttgttttgttggtagtttttggcaacattgattatgtaacactagctgcttgaaa--gtttgttaaattcttgtagtagcaatgtag------------------------------------------------

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|211277469|gb|FL423591.1|FL423591

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211130257|gb|FL407388.1|FL407388

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAAACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211521515|gb|FL409901.1|FL409901

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211398118|gb|FL400635.1|FL400635

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211084566|gb|FL380767.1|FL380767

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|149089469|gb|EE178714.2|EE178714

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211296724|gb|FL392421.1|FL392421

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|13125950|gb|BG316625.1|BG316625

EST:     ACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211392721|gb|FL395700.1|FL395700

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211530400|gb|FL405488.1|FL405488

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|89247284|gb|DY619070.1|DY619070

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211209589|gb|FL396501.1|FL396501

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211045601|gb|FL405927.1|FL405927

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|89252724|gb|DY624510.1|DY624510

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|211221316|gb|FL377252.1|FL377252

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

EST: gi|91053847|gb|EB164265.1|EB164265

EST:     ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAG                         GAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC
genomic: ATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTAC

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), 48 (downstream exon)
Score: 196

ATGGAGCTGGCGGCAAAGGGACTTGGGGCAAACTAATTGAGACTGATGCAGAGGCATGCCTTGATCGAAATGATCCAAATTATGACAGTGGTGAGgtaaggacta ... tgctactcagGAGCCATATGAGTTAGTTGAGGCCCCTGTTTCAACCCCACTAGAAGACTACAAGAAATCTGTTGTCCCTTTAATTGAGGAATATTTCAGCAATGGGGATG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 177

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 101