ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatccttttattgatgtgctgttctgttgcacttaaagcttataataagaattctttcatgtag

Basic information

species	Zea mays
transcript	GRMZM2G073498_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 5'ss of exon 3

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatccttt--tattgatgtgctgttctgttgcacttaaagcttataataagaattctttcatgtag
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||||||||||| || ||||||||||||||||||| ||||  ||| ||||  | |||   ||||| ||   | |||| ||  |||| |  |||||      |||  ||   |||||
TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGTTTGGGTTCTGGCATTTCTCTCTTTATTGCTACCAATATCTGgtgagcacattgaactttgttcttctctattgttgacattttctattcaacttga--cttatgg---aaatctttctctgtag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 3

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct------------tggacttaatccttttattgat-gtgctgttct-gttgcacttaa--agcttataataagaattctt--tcatgtag------------------------------------
| |  ||||| || || ||||| || ||||| ||||| ||||| || ||||| |||||  |||| ||||| || || || |||||||| |||||||||||||||   |||            ||   |   |||   | || ||  |  |||||| ||||   |  |  | ||  |||  || ||  ||   ||| ||                                     
TATGTTTTGCGGGTATAATTGTGATATGTCTAGATGAGCTTCTTCAAAAAGGATATGGTCTGGGGTCTGGAATATCCCTATTCATTGCAACCAATATCTGgtaaatttctacttttccctgatgagatatttccagcttttaattataatgttcttgttgtcttctagcaactgctaaccaggatatttaaccatttatctaatacttaaatggaattcccttttcgtttttcag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G32680.1 (Glycine max), 5'ss of exon 3

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggac--ttaatccttttattgatgtgctgttctgttgcacttaaagcttataataagaattctttca-tgtag---------------------------------------------
| |  ||||| || || ||||| || ||| ||||||| || || || ||||| ||||||||||||||||| ||||||||||||||||| || ||||| |||||||  |  | | |  |||||   ||   | || |  |      | |  |||    || |||  ||  |||     | ||||                                              
TATGTTTTGCGGGTATTATTGTGATATGTTTGGATGAGCTCCTTCAAAAAGGCTATGGCTTGGGATCTGGAATTTCTCTGTTCATTGCCACTAATATATGgtaagttttattgtcccttaatttattgtataatttattccagcatcgagcttgtgtctcatagcaactattagcaaagtgtatggtcttttataaaaaacttatatgaattctctgattacattgcag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA12G17950.1 (Glycine max), 5'ss of exon 3

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcat------------cttggacttaatccttttattgatgtgctgttctgttgcacttaaagcttataataagaattctttcatgtag-------------------------------
| |  ||||| || || ||||| || ||| ||||||| || || |||||||| ||||| || |||||||| ||||||||||||||||| || ||||| |||||||  |            |||  | || || |  | |||||  |  |||    | | |  ||  |   | | |      ||||| ||  |                                
TCTGTTTTGCAGGTATTATTGTGATATGTTTGGATGAGCTCCTTCAGAAAGGGTATGGTTTAGGATCTGGAATTTCTCTGTTCATTGCCACTAATATATGgtaagttttcttgttaataacttacaatttattccatcattgagcttgtgtctcatagaaactattgaacaaactgtatggtcttttatcaaaaacttgtatgaattctctcattatgttgcag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT1G78720.1 (Arabidopsis thaliana), 5'ss of exon 2

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatcctttta-ttgatgtgctgttctgttgcacttaaagcttataataa--gaattctttcatgtag
| |  ||||||| ||| || ||  | ||| | ||||| ||||| ||||||||||||||| | || ||||| ||||| || ||||||||||| |||||||||| ||  |   | |||  | | | |   ||  |  | |   | |||   |  |   |  ||  |||  || ||  ||    |||
TCTGTTTTGCTGCCATTATCGTTCTTTGTTTAGATGAGCTTCTTCAGAAAGGTTATGGCCTCGGTTCTGGTATTTCCCTTTTCATTGCTACTAATATCTGgtgagttttaagtactccaacgtctagctttctcggttaaaccgttatgcgcatttcagatgttaatggagtttcttttcttag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv19s0014g01020.t01 (Vitis vinifera), 5'ss of exon 3

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatcc-----ttttattgatgtgctgttctgttgcacttaaagcttataataagaattctttcatgtag-----------------------------------------------------------------------------------------
| |  |||||||| |||||||| || ||| | ||||||||||| |||||||| |||||  | || ||||| |||||||| ||||| || || |||||||||| ||||||| |  |||  ||      |||| ||  |    | |  | ||| || |  |   | | | |  |  | |   || |||                                                                                         
TCTGTTTTGCTGGTATCATTGTGATATGTTTAGATGAACTTCTGCAGAAAGGATATGGGCTTGGCTCTGGAATTTCTCTTTTCATAGCAACTAATATCTGgtgagcatctggttctttttctgggattttttttattaatttatcattttgaacatggaatatttga-agaagctttactatctagcagccagcgtctggtgaatgtggtctcatttctgggttgaccattaactctactgtcaaatagtgacaattgttttgatcaattggcag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv00s1338g00020.t01 (Vitis vinifera), 5'ss of exon 2

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatcc-----ttttattgatgtgct-gttctgttgcacttaaagcttataataagaattctttcatgtag---------------------------------------------------------------------------------------------------
| | ||||||||| |||||||| || ||| | ||||||||||| |||||||| |||||| | || ||||| |||||||| ||||| || || |||||||||| ||||||| |  |||  ||      |||| || ||    |  |  | ||| || |  |   | | | |  |  | | || | |||                                                                                                   
TCTGCTTTGCTGGTATCATTGTGATATGTTTAGATGAACTTCTGCAGAAAGGATATGGCCTTGGCTCTGGAATTTCTCTTTTCATAGCAACTAATATCTGgttagcatctggttctttttctgggattttttttaattaatttatgattttgaacatggaatatttga-agaagctttatcgtctagcagccagtgtctggtgaatggtgggcccattttctgggtgaaccattaactctactgtcaagtagtgattgctaatgaattgttttgatcaattggcag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 2

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatcc-----ttttattgatgtgct-gttctgttgcacttaaagcttataataagaattctttcatgtag---------------------------------------------------------------------------------------------------
| | ||||||||| |||||||| || ||| | ||||||||||| |||||||| |||||| | || ||||| |||||||| ||||| || || |||||||||| |||||||    |||  ||      |||| || ||    |  |  | ||| || |  |   | | | |  |  | | |  | |||                                                                                                   
TCTGCTTTGCTGGTATCATTGTGATATGTTTAGATGAACTTCTGCAGAAAGGATATGGCCTTGGCTCTGGAATTTCTCTTTTCATAGCAACTAATATCTGgttagcatctgcttctttttctgggattttttttaattaatttatgattttgaacatggaatatttga-agaagctttattgtctagcagccagtgtctggtgaatggtgggcccattttctgggtggaccattaactctactgtcaagtagtgattgctaatgaattgttttgatcaattggcag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S323_56V6.1 (Physcomitrella patens), 5'ss of exon 3

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatccttttatt-----gatgtgctgtt-----ctgttgcacttaaa-gcttataataagaattctttcatgtag--------
| ||||| ||||| |||||||| |||||||| |||||  | || ||||| ||||||||  ||||||| || |||||||| |||||||| |||||||||||||| ||    |   ||| || | |  | |     ||  ||  |||     |   |  |||     ||||   |   ||| |||    | ||         
TCTTCTTCGCTGGAATCATTGTTATCTGTCTTGATGAGTTGCTACAGAAGGGTTATGGACTGGGATCCGGAATTTCTCTTTTCATTGCCACCAATATCTGgtaggctcagttttctttatgcctgcaattcttagaaatgaagttgagagccaatatactcgtctgcttgcgaattgaaatctggagtttatctctatgt

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 3

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatc----------cttttattgatgtgctg-----ttctgttgcacttaaagctta---taataagaattctttcatgtag-
| ||||| || || || ||||| ||||||||||||||  |  | ||||| ||||||||  | || || || |||||||||||||| || || ||||||||||||||   ||  |  || ||          |   ||   ||  | |       |||| |    |      |||   ||  ||||    |   | |||  
TGTTCTTCGCCGGAATTATTGTTATCTGTCTGGATGAGTTGTTACAGAAGGGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctatttttatatattcgaaaaaggttcacgtacaaataggataacaaactctgctaggttgtggatttaatgtacaaagatgaatgctacgtact

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ15673 (Selaginella moellendorffii), 5'ss of exon 2

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatccttttattgatgtgctg--ttctgttgcacttaaagcttataataagaattctttcatgtag
| ||||| ||||| ||||||||||| || ||||||||||| |||||||| || || ||  | ||||| || || ||  ||||||| || ||||| ||||||| ||        || |  |||||||   | | || |   |||| |||    |    |                         
TCTTCTTCGCTGGTATCATTGTCATTTGCCTGGATGAACTCCTCCAGAAGGGATACGGGCTTGGATCGGGAATCTCGTTGTTCATAGCCACCAACATCTGgtgagag----aaaccttttccttttccagctctgattatttctattgtgactgtgacag-----------------------

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|32849493|gb|CD989174.1|CD989174

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32849693|gb|CD989374.1|CD989374

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32938027|gb|CF042846.1|CF042846

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|6021123|gb|AW066051.1|AW066051

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32836577|gb|CD976255.1|CD976255

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32793445|gb|CD945681.1|CD945681

EST:     GATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|31354034|gb|CD438391.1|CD438391

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32932204|gb|CF037016.1|CF037016

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32838942|gb|CD978623.1|CD978623

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32827818|gb|CD967496.1|CD967496

EST:     GATCTAGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|32934776|gb|CF039588.1|CF039588

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

EST: gi|148953951|gb|EC899337.2|EC899337

EST:     GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTG                         CGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG
genomic: GGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCG

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: 759

TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatct ... tttcatgtagCGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCGTGGTGCTGAATTTGAAGGGGCTGTCATTGCACTGTTTCATCTGTTGATT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 643

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 828