ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctggcttctcaccacttgattcatcgaacgcaatctttgaataattttactttaacctttgtttggtcttctattggtttag

Basic information

species	Arabidopsis thaliana
transcript	AT2G20140.1
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 5'ss of exon 4

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctggcttctcaccacttgat-tcatcgaacgcaatctttgaataattttactttaacc--tttgtttggtcttctattggtttag-------
 ||||||||||| ||||| || || ||||| || || |||||||| || |||||||| || |||||||| || |||||| | ||||| || || ||||| ||| |  |   |    || || | | ||||  | ||| |||    | ||   | |     | ||  |||  ||||| |  |   ||||      |        
GGAAGAGTTTGTCATGACCAAGGATGAGTTTTCCGGTGCTGATATCAAAGCAATATGTACTGAAGCTGGACTTCTTGCTTTGAGAGAACGCCGAATGAAGgtatgagtgaacctttttgtctctaattgaaataatcaaacc---ttttatgagagcccaatttagaccgttttgtctactgacctatataccaaacaatgtc

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 4

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaag---gattctctggcttct--caccacttgattcatcgaacgcaatctttgaataattttactttaacc-tttgtttggtcttctattggtttag---
 ||||||||||| ||||| ||||||||||| || || |||||||| |||||||| |||||||| |||||  |||||||  | ||||| ||  | ||||| |||     ||   | |  ||| |   |  | | ||||||  |||     |   ||||||    |  |  ||    |    |  | | ||||||| |  |   
GGAAGAGTTTGTTATGACCAAAGACGAGTTTTCGGGTGCTGATATTAAGGCAATCTGCACAGAGGCTGGATTGCTTGCCTTAAGAGAACGCAGAATGAAGgtagacgtgaacttttatcttttgctaaaaatagattca--gaattttctgggtgaatataactgttcaaataactcaactattttgctattggataggaat

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 4

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctggcttctcaccacttgattcatcgaacgcaatct--ttgaataattttactttaac----ctttgtttggtcttctattggtttag--
 ||||||||||| ||||| ||||| |||||||| || |||||||| ||||| || ||||| || |||||  |||| ||  | ||||| ||| | |||||||| ||  |   || |  || |  || |  |||| |  ||     |||   ||||||    || |  ||     |    |||  | | |||| |  |  |  
GGAAGAGTTTGTTATGACCAAAGATGAGTTCTCGGGCGCTGATATTAAGGCCATCTGCACGGAGGCTGGATTGCTCGCCTTAAGAGAACGTAGAATGAAAgtgagcctgaacttgtatccctaca-tcaattcgtataaacttgtctgggtgaatagaagtattcgaataactcgaccttttatttgctatcgaataggga

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G19280.1 (Glycine max), 5'ss of exon 5

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctct----ggctt--ctcaccacttgattcatcgaacgcaatctttgaataattttacttta--acctttgtttggtcttctattggtttag
 ||||| ||||| ||||| |||||||| ||||| ||||||||||||||||||||||| || ||||||||| | ||||||||  |||| ||||| ||||| ||||| | |||||    ||||    |    |  | ||  |   |  | | ||  |   |   |  |  ||   || ||| |     ||  ||||| |  | 
GGAAGAATTTGTTATGACTAAAGACGAATTCTCCGGAGCTGATATAAAGGCAATATGTACTGAAGCTGGTTTACTTGCTCTACGAGAACGTCGAATGAAGgtaagaaatctctttgtggctcaattgtttatataatataataatagtactccattgttgtatggaagttgctacttttttacaagctcttattgataaa-

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctggcttctcaccacttgattcatcgaacgcaatctttgaataattttactttaacctttgtttggtcttctattggtttag----------
 ||||| ||||| ||||| ||||| || ||||| ||||||||||||||||||||||| || ||||| ||| | ||||||||  |||| || || ||||| ||||| | |||||    | |      |  | | || | || | ||  ||| |      |   |     |||       ||  ||||| |  ||          
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgctagttttttac---aactcatattgataaagccaaaatata

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA03G32800.1 (Glycine max), 5'ss of exon 5

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaagga-----ttctctggcttctcaccact-tgattcatcgaacgcaatctttgaataattttactttaacctttgtttggtcttctattggtttag----
|||||| ||||| ||||| || || |||||||| |||||||||||||| |||||||| || ||||||||  | |||||| |  |||| || || ||||| || || |     |||| |   ||   ||   | |     |   || |       ||   || |  | | |     ||  |||    | ||  |  |||     
AGAAGAATTTGTTATGACCAAGGATGAGTTCTCTGGAGCTGATATAAAAGCAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGAATGAAGgttagaagtatcttctatatgtttgtacagttatagcctaaacaatgttgatcctgtggaaataaattatggaacttagttg---ctgtaaggaattacaaag

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G35510.1 (Glycine max), 5'ss of exon 5

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaagga-----ttctctggcttctcaccact-tgattcatcgaacgcaatctt--tgaataattttactttaacctttgtttggtcttctattggtttag
|||||| ||||| ||||| || || |||||||| |||||||||||||| |||||||| || ||||||||  | |||||| |  |||| || |||||||| || || |     |||| |   ||   |    | ||    |   || |  ||| |   |||  || ||| | ||   ||  | |       ||     ||| 
AGAAGAATTTGTTATGACTAAGGATGAGTTCTCTGGAGCTGATATAAAAGCAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagtatcttctatatatttgtagagttatggcctaaataatgtgatcctgtggaaatatattattgtactgttgctgttaggaattacaaagtta-

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 5'ss of exon 5

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctggcttctcaccacttgattcatcgaacgcaatct-----ttgaataattttactt---taacctttgtttg-gtcttctattggtttag
 ||||| ||||| ||||| || || ||||| || |||||||||||||||||||||||||| ||||||||| |||||||| | ||||| || || ||||| || |||  |  ||    | |  || |||    ||  ||| | ||| |     |  ||| ||| |   |   | | |  ||  ||  | |   |||  |||  
GGAAGAATTTGTTATGACTAAGGATGAGTTTTCTGGAGCTGATATAAAGGCAATATGCACTGAAGCTGGTTTGCTTGCTTTAAGAGAACGGCGTATGAAGgtgagg-cttgctcttctatttcctcttatagcaaggaaggaaatttcattgtctaatgattgtgtatgtgtgagcactgcatgcatgtatgatttttttc-

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ32659 (Selaginella moellendorffii), 5'ss of exon 5

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctg-gcttctcaccacttgattcatcgaacgcaatctttgaataattttactttaacctttgtttggtcttctattggtttag
 ||||||||||| ||||| || || || ||||| |||||||| || |||||||| ||||| |||||||| || || || || ||||| || |||||||| |||  | |||||   |||| |||| ||||   || |  ||||  || ||       || | ||  |                            
TGAAGAGTTTGTGATGACGAAGGATGAATTCTCTGGAGCTGACATCAAGGCAATGTGCACTGAAGCTGGGCTTCTGGCACTAAGAGAACGGCGGATGAAGgta--gtttctcaatgcttttcacaactt---tcttgtaacg--attttc------ttcttctccag---------------------------

upper sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ20767 (Selaginella moellendorffii), 5'ss of exon 5

AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctg-gcttctcaccacttgattcatcgaacgcaatctttgaataattttactttaacctttgtttggtcttctattggtttag
 ||||||||||| ||||| || ||||| || || |||||||| || |||||||| ||||| |||||||| || || || || ||||| || |||||||| |||  | |||||   |||| |||| ||||   || |  ||||  || ||       || | ||  |                            
TGAAGAGTTTGTGATGACGAAGGACGAATTTTCTGGAGCTGACATCAAGGCAATGTGCACTGAAGCTGGGCTTCTGGCACTAAGAGAACGGCGGATGAAGgta--gtttctcgatgcttttcacaactt---tcttgtaacg--attttc------ttcttctccag---------------------------

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|124971504|gb|EL045265.1|EL045265

EST:     CTGGTCTGCTTGCTCTTAGAGAGTCGTCGGATGAAA                         GTGACGCATGTGGACTTCAAGAAGGCGAAGGAGAAGGTTATGTTCAAGAAG
genomic: CTGGTCTGCTTGCTCTTAGAGAG-CGTCGGATGAAAgtaaggattc ... attggtttagGTGACGCATGTGGACTTCAAGAAGGCGAAGGAGAAGGTTATGTTCAAGAAG

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns