ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtaggtttagtaagaataccaattcaatgtctcgaaaagaatcattttggattccttgtttgacacagctcttatgataatcttcag

Basic information

species	Arabidopsis thaliana
transcript	AT4G37640.1
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G006977_T01 (Zea mays), 5'ss of exon 5

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtaggtttagtaa---gaataccaattcaatgtctcgaaaagaatcatt-ttggattccttgtttgacacagctcttatgataatcttcag------------------------------------------
|| || || |||||||| ||||| ||||| || || ||||||||||| || || ||||| ||||| ||||| || |||||||| ||||||||  | || ||||  |    ||    | |||  | |||   || | ||||      | |  | ||     |  |  |   |  | || |     || | |                                           
GGTCGATCAGTTTACATCAACATTCAGAAGTTTGTGCAGTTTCAGCTCACTGTCAATGTGGTTGCTCTGGTGGTAAACTTCTCCTCAGCTTGCCTGACAGgtacatccgatatcctgtatatgagttcgtggtttggaaatcctctactacttgagcgtatcctgaatgtactttttgtttatttcataaatatatgtctcattgttcgcattcatgctgattgctgattcag

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G317270_T01 (Zea mays), 5'ss of exon 3

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtaggtttagtaagaat--accaattcaatgtctcgaaaagaat-cattttggattccttgtttgacacagctcttatgataatcttcag
|| || || || ||||| ||||||||||| ||||| ||||||||||| || || || || || || || ||||| |||||||| |||||||| || |  |||| | ||   |||||      ||  |||| | |||  | | || | |  | |||    || | |   | |||  | |  |    | |||
GGGCGATCGGTGTACATCAACATCCAGAAGTTCGTGCAGTTTCAGCTGACAGTCAACGTCGTCGCTCTCGTTGTCAACTTCTCCTCAGCTTGCTTGATAGgtaagcttccaaagaactggtgaaagcaatctgtcgccatgcatgcttgcttgatctgctgct-gctgctgcttgtgttgtgga-tccag

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA01G40130.2 (Glycine max), 5'ss of exon 5

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtaggtttagtaagaataccaattcaatgtctcgaaa-agaatcat---tttggattccttgtttgacacagctcttatgataatcttcag---------------------------------------------------------------------------------------------
|||||||| ||||||||||| || ||||||||||| ||||||||||||||||||||||| |||||| |  | || || ||| | ||||| || || || |||  |   |     |||   | ||   |  | | ||| ||  | ||    ||  ||     |   |  || || ||| |  |  | ||||                                                                                              
GGACGTTCGGTTTACATAAATATTCAGAAATTCGTACAGTTTCAGCTTACCGTTAATGTGGTTGCATTAATAGTGAATTTCACATCAGCCTGCTTGACAGgttag---aaagttaatttaattttgttaccacaaaatagggttatgtacttacataaacagcaaggaactgcactttttttg-ttttcacaccagcctgcatgacagattataaataaaaacactttttttgttttcttcttattagttatcttatgatcttacatgtattttctctatccag

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G05190.2 (Glycine max), 5'ss of exon 5

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtagg--------tttagtaagaatacc--aattcaatgtctcg-----------aaaagaatcatttt--ggattccttgtttgacacagctcttatgataatcttcag------------------
|||||||| ||||||||||| || ||||||||||| ||||||||| | || |||||||| |||||| |  | || || ||| | ||||| || ||||| |||  |        |||| |     ||||  ||  ||||  |  |           | || ||   ||||  |  ||   |  ||   |    |  | | || |||||                     
GGACGTTCGGTTTACATAAATATTCAGAAATTCGTACAGTTTCAGTTAACTGTTAATGTGGTTGCATTAATAGTGAATTTCACATCAGCCTGCTTAACAGgttagaaagttaatttaattttgttaccccaaaacaatagcctgcatgacaggttataaaaactgttttttgtgttttcttcttattattagttatcttatgatcttacatgcaatttctctctccag

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G17450.1 (Glycine max), 5'ss of exon 6

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgt----aggtttagtaagaataccaattcaatgtctcgaaaagaatcattttggattccttgtttgacacagctcttatgataatcttcag--------------------------------------------------------
|||||||| ||||||||||| || || |||||||| ||||| |||||||| || ||||| |||||| |  | || |||||||| ||||| ||  | || |||    |  ||| |    | || |  ||  |||  ||      | |||||||  ||||| |        |||   | |      | |  |                                                         
GGACGTTCAGTTTACATAAATATTCAAAAATTCGTACAGTTCCAGCTTACTGTAAATGTGGTTGCATTACTAGTAAACTTCTCATCAGCATGCATGACAGgttaaaaaattttgcctaattagc--ttacatgcatcctctc-attcatttttcattccgttcaaagtgcagtggtaaaatgtgtttataagaaaaataaaacttttttatctcacgattttacatgtatttgattttgatcttcag

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G22420.1 (Glycine max), 5'ss of exon 5

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtaggtttagtaagaata-ccaattcaatgt-ctcgaaaagaatcattttggattccttgtttgacacagctcttatgataatcttcag-------------------------------------------------
|||||||| ||||||||||| || || |||||||| ||||| |||||||| || ||||| |||||| |  | || |||||||| ||||| ||  | || |||      | || |  ||   | |   |  | |        | |||||||  ||||  |        |||   | |      | |  ||                                                 
GGACGTTCAGTTTACATAAATATTCAAAAATTCGTACAGTTCCAGCTTACTGTAAATGTGGTTGCATTACTGGTGAACTTCTCATCAGCATGCATGACAGgttaaaacattatgcctaattagtcttacatgcatcctttcattcatttttcattctgttcaaagtgcagtggtaaaatgtgtttatagaaaatagaaaactttttatctcacgattttgcgtgtatttgatcttcag

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0129g00180.t01 (Vitis vinifera), 5'ss of exon 5

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtagg------------------tttagtaagaataccaattcaatgtctcgaaaagaatcattttggattccttgtttgacacagctcttatgataatcttcag-------------
|||||||| || |||||||| || || ||||| || ||||| || ||||| ||||| || |||||| |  | || |||||||||||||||||||| || |||| |                  ||   |   ||    | |||  ||| | |  ||  |   || |   ||  |      |||    | ||||     | ||                
GGACGTTCAGTCTACATAAATATTCAAAAATTTGTACAGTTCCAACTTACGGTTAACGTGGTTGCATTAATAGTCAACTTCTCTTCAGCTTGTTTGACAGgtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttcag

upper sequence: AT4G37640.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0129g00110.t01 (Vitis vinifera), 5'ss of exon 4

GGACGTTCTGTTTACATAAACATCCAGAAATTCGTTCAGTTTCAGCTTACCGTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACCGgtagg------------------tttagtaagaataccaattcaatgtctcgaaaagaatcattttggattccttgtttgacacagctcttatgataatcttcag-------------
|||||||| || |||||||| || || ||||| || ||||| || ||||| ||||| || |||||| |  | || |||||||||||||||||||| || |||| |                  ||   |   ||    | |||  ||| | |  ||  |   || |   ||  |      |||    | ||||     | ||                
GGACGTTCAGTCTACATAAATATTCAAAAATTTGTACAGTTCCAACTTACGGTTAACGTGGTTGCATTAATAGTCAACTTCTCTTCAGCTTGTTTGACAGgtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttaag

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|116395208|gb|EG437800.1|EG437800

EST:     GTTAATGTTGGTGCACTGGTTGTTA-CTTCTCTTCAGCTTGTTTAACCCG                         GA-GTGCTCCTTTA-CTGCTG
genomic: GTTAATGTTGTTGCACTGGTTGTTAACTTCTCTTCAGCTTGTTTAACC-Ggtaggtttag ... taatcttcagGAAGTGCTCCTTTAACTGCTG

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