ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtattgagttgattgattctttctgagtttatgaagtttgtttggaagttatcaacaagtgaatcttttaatggttgaag

Basic information

species	Arabidopsis thaliana
transcript	AT3G26380.1
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G30770.1 (Glycine max), 5'ss of exon 4

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtatt----------------gagttgattgattctttctga-----gtttatgaagtttgtt-tggaagttatca-aca-agtgaatcttttaatggttgaag--------------------------------------------------------------------------------------------
 | ||| |||||  | ||||||||||||||||||||||||||| |||| || ||||||||||||   || ||||| |  |   |  | ||||     ||||||||                || ||||||  || ||  | |     || |  ||| |||||  ||   | |  |  ||| | |  || ||||  |  |  ||                                                                                             
TAGAGTACATAGTTTAGGTTTGAAGTTTGGGATTCATGTTATGAGAGGGATAAGCACACAAGCTGTCAATGCAAACACCCCTATCCTAGATACAACAAAGgtatttttgcatttcttctatgacttgatttttttttctttacctctgtattagaaatttgtagtgatggatgccttacataatacatttttttcttctaaaaaagtacaaaatagcaggcagaatatgagaatattgttttatcttaattggaagttcttgttgaccttgatttcctcctcttgcaatttcctag

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G05450.1 (Glycine max), 5'ss of exon 3

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtat-tgagttgattgattctttctgagtttatgaag---tttgtttggaagttat-caacaagtgaatcttttaatggttgaag---------------
 ||||| ||||||| |||||||||||||||||||||| ||||||  |||||||| ||||| || |  ||    || |  |   |  | ||||     | ||||  |    | |||  |||  | |   || || ||    |     || || ||||  |   |   ||| | ||| | ||   |                
TAAAGTACATAGAACGGGTTTGAAGTTTGGGATTCATCTTATGGCTGGAATCAGTACACAGGCATTCAATAACAACACACCAATACTTGATACACAAACGgtacatcttctaattccttcaatatagtttaataaaaaaataaaggtgaaatttatatagttaaaaaatgtattactagtaacatgttggtttgagcgga

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G37760.3 (Glycine max), 5'ss of exon 2

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtattgagttg-attgattctttctgagtttatgaagtttgtttgg-----aagttatcaacaagtgaatcttttaatggttgaag--------------------------------------------------------------------------------------------
  |||| ||||| |||||||| || |||||||||||||| ||| |||| || ||||||||||||   || ||||| |  |   |  | ||||     | |||||||  ||  ||| || || |   | || || |  ||| |||       ||  |||   | | || ||     |     || |                                                                                             
TCAAGTACATAGCATGGGTTTAAAATTTGGGATTCATGTCATGAGAGGGATAAGCACACAAGCTGTCAATGCAAACACCCCTATCCTTGATACAACAATGgtattgctttttatttatgctat--aatttgattatatttttttaaggaataaaatatgctctaatggatgccccatgtaatgcattttatcttgtaacattacaagcaagagttgaggatgttgctataccttaatccaaagtttcttgttgatctcctcctctttcaatgccttag

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G13960.1 (Glycine max), 5'ss of exon 3

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtattgagttgattgattcttt--ctgagtttatgaagtttgtttggaagttatcaacaagtgaatcttttaatggttgaag-----------------------------------------------------------------------------------------------------------------------
 ||||| |||||  | |||||||||||||||||||| |||||| |||| || ||||| ||||||   || ||||| |  |   |  | ||||     ||||| ||   |  |||  | || |  ||   ||| |   || |  ||     |||  ||    ||||    |  |||  | |                                                                                                                         
TAAAGTACATAGTTTAGGTTTGAAGTTTGGGATTCACGTTATGAGAGGGATAAGCACGCAAGCTGTCAATGCAAACACCCCTATCCTAGATATAACAAAGgtgttctttgcatttctgctatgacttgattttttttgtatacttttgtattagaaatt--tgaagtgatggatgccttacataatacctttttttttctttctaaaaatgtacaaaatggcaggcagaatatgataatattgttttatcttaattggaagttcttgttgaccttgatttcctcctcttgcaatttcctag

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G43530.1 (Glycine max), 5'ss of exon 2

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtat-tgagttgattgattctttctgagtttatgaagtttgtt-tggaagttatcaacaagtgaa-tcttttaatggttgaag-------------------
 ||||| ||||| |||||||| ||||||||||||||| | ||||  |||||||| ||||| || || ||    || |  |   |  | ||||  |  | ||||  |    | | | |||| | |    ||  |   ||    | | |   || |      || || |||| | ||| |  ||                    
TAAAGTACATAGTATGGGTTTAAAGTTTGGGATTCATCTAATGGCTGGAATCAGTACACAGGCATACAATAAGAACACGCCAATACTAGATACGGCAACGgtacatattcttaattattcctacaacattgtttgggtaaactcttgtcattgtt--ttggtaaactcttgtcatgttcaaaattattaccctaattttttt

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G05440.1 (Glycine max), 5'ss of exon 2

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtattgagt-tgattgattctttc----tgagtttatgaagtttgt----ttggaagtta----tcaacaagtgaatcttttaa----tggttgaag---
 ||||| ||||| |||||||| ||||||||||||||| |||||   |||| ||| ||||| || |  ||    || |  |   |  | ||||     |  |||   | | | | | |||| | |    |   || || || | |||    ||  || |||    | ||| | ||   |  | ||    |  ||| |    
TAAAGTACATAGTATGGGTTTAAAGTTTGGGATTCATCTTATGCCTGGAACCAGTACACAGGCATCCAATAACAACATGCCAATACTAGATACAACAACAgtagaaattcttaattattcctacaacattgtttgataaactctgtcatgttcaaaattagaatttaactaatggtaccctaaacttttttttggaactt

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv01s0137g00630.t01 (Vitis vinifera), 5'ss of exon 3

GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtattgag--ttgattgattctttctgagtttatgaagtttgtttg----gaagttatcaacaagtgaatcttttaatggttgaag--------------
|||||| ||||| ||||||||||| |||||| ||||||||||| ||||||| |||||||| ||    || ||||| |  |   || | |||||  ||||||| |||    || ||    ||||  | | ||  | |  ||| |||     || |||   |  | || |  ||||  |   ||                  
GAAAGTACATAGCATGGGTTTGAAATTTGGGTTTCATGTTATGAGAGGAATAAGCACACAGGCAGTCAATGCAAACACCCCTATTTTAGATAGCATTAAGgtgttgctctttcatcccatcttgataatttccttatctttttttcttgtgatgtttatataatgtcacactttgtagattttcttcaactctgaacctt

upper sequence: AT3G26380.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S80_41V6.1 (Physcomitrella patens), 5'ss of exon 3

---GAAAGTTCATAGAATGGGTTTGAAGTTTGGGATTCATGTTATGGGAGGAATCAGCACACAAGCTTATAACGCAAATAGTCTCGTTATGGAT---AGTGTTAAGgtattgagttgatt---------------gattct----ttctgagtttatgaagtttgtttggaagttatcaacaagtga-atct-tttaatggttgaag----------------
     |||| |||   ||||||||||| |||||||||||||| ||| | ||||||||||     |||    | || || | ||   |  |||     |  ||  || |  |||  | |||               |  | |    ||||| || | | || ||  ||  | ||| |  | ||| |||  | | ||||| || || |                 
AGAACAAGTGCATGCTATGGGTTTGAAATTTGGGATTCATGTGATGCGGGGAATCAGCAGCGCTGCTGTGGAGGCGAACACTCCAATCTTGGGCGCCAAGgtgcagctcctgacctaatttctgggaacactgtaggctttccaattctgggtgtgtaaaattcatt--gcagtcacgaccaattgatgtgtgtttaacggatgcacggagtattttggtcag

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|124745698|gb|EH836510.1|EH836510

EST:     ACGCAAATAGTCTCGTTATGGATAGTGTTAAG                         GGAGGTGCTTATGAAGAATCAGGTAGACAGTGGCGAGCGAAAGATATTGGG
genomic: ACGCAAATAGTCTCGTTATGGATAGTGTTAAGgtattgagtt ... atggttgaagGGAGGTGCTTATGAAGAATCAGGTAGACAGTGGCGAGCGAAAGATATTGGG

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