ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
PPT, BS, UA-tract
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

...gaaatatttaatatctgaaacattaaacccttgttttttctctttttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT

Basic information

species	Vitis vinifera
transcript	Vv06s0004g01360.t01
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: Vv06s0004g01360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g21600.1 (Oryza sativa), 3'ss of exon 5

gaaatatttaatatctgaaacattaaacccttgttttttctctttttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT
       | ||||||   |  ||       ||  |||   |||  |  ||  | |||       |     || |    ||  |||  |   ||    |||| ||| | || ||||| ||||| || ||||||| |||  | ||||| ||||| || |||||||| |||||||||||| | ||||| || || ||||||||
------gtaaatatc---attatgtgctattttctttcagtctactcattgatatttaaaaggctaagtattctccccttttaatccttggtta---cagCCTGGGCAGTTGAGGTTGCAGAGCGCACTGCTTTCTTGATAGCAAGGTGGCAAGGTGTTGGTTTTACCCATGGTGTGCTCAACACGGATAATATGAGTGT

upper sequence: Vv06s0004g01360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G158595_T02 (Zea mays), 3'ss of exon 5

gaaatatttaatatctgaaacattaaacccttgttttttctctttttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT
         |||||||       |    | || | ||| || |     |  |  |   |  |||  |    |     || |  |   |  ||||   |||||||| | || |||||||| ||  | ||||||| |||  | || || ||||| || ||||| ||||||||||||||  | ||||||||||||||||||||
------gcaaatatctttg----tgccacattttgtttgctttgaaaatcctcatcgatcatttggggaactaacctttcctgacaatccattgcaacagCTTGGGCAGTTGAGGTGGCGGAGAGGACTGCTTACTTGATAGCTAGATGGCAAGGTGTTGGCTTCACCCATGGTGTACTTAACACTGACAACATGAGTGT

upper sequence: Vv06s0004g01360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G44280.1 (Glycine max), 3'ss of exon 2

gaaatatttaatatctgaaacattaaacccttgttttttctctttttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT-----------------------------------------------------
                                                                                                      |||  ||||||| | || || |||||||||||| |  |||| || || ||||||||||||||||| ||||||||| ||||||| || ||||||||  |                                                     
-----------------------------------------------------------------------------------------------------gtgggtggtggagattgctgagcgtactgcttccctgattgccagatgacagGGGGTTGGTTTCACTCATGGTGTGCTGAACACGGATAACATGAGCATTTTGGGTCTTACAATAGATTATGGCCCATTTGGATTTTTGGGTGCTTTTGATC

upper sequence: Vv06s0004g01360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G39090.2 (Glycine max), 3'ss of exon 2

------gaaatatttaatatctgaaacattaaacccttgttttttctctttttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT
       |||| ||| | ||||     |||  |    ||| ||    | || | || | || | |||  | | | |   ||  ||| || |||||  || | ||||| |||  ||||||| | || || |||||||||||| |  |||| || |||||||||||||||||||| ||||| ||| ||||||| || ||||||||  |
tttttaaaaatctttga-atcttctggattgtaatgctgtctt----cattgtattgtattgtattgactatctatcccttctttttaa-tggtgttttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGCAGGGGGTTGGTTTCACTCATGGCGTGCTGAACACGGATAACATGAGCAT

upper sequence: Vv06s0004g01360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G13030.1 (Arabidopsis thaliana), 3'ss of exon 5

---------------------------------------------gaaatatttaat-atctgaaacattaaacccttgttttttctc-tttttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT
                                                || || | |  | | |   |||| ||  ||||| || |   || ||   ||  |      | || |   |   |  |||    |  | |||| | | ||| |||   || ||  | || || ||||| ||| ||||||||||||| ||||| || || |||||||||||||||||| | ||||||||||| |||||  |
gtaattccctaatgaagtatttgtcaaaatgctgcatgaaacgccactattttcatttgtatcacctattatacttttgttattgccagttgttacattaatggccaatattcgaactaactc-ttttgcttttttaattatattagCATGGATCGTTGAAATTGCTGAGCGTACAGCTACCTTAGTTGCAAGATGGCAAGGTGTAGGTTTCACCCATGGTGTGCTCAACACTGACAATATGAGCAT

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|71873134|gb|DT022189.1|DT022189

EST:     AGGAGAACAAGATGAATCAATTGTGGACTTAACTTCAAACAAGTATGCTG                         CTTGGTCGGTGGAGGTGGCTGAACGTACTGCTTCCTTAGTTGCAAGCTGGC
genomic: AGGAGAACAAGATGAATCAATTGTGGACTTAACTTCAAACAAGTATGCTGgtgagtactt ... attgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGC

EST: gi|71862025|gb|DT011080.1|DT011080

EST:     AGGAGAACAAGATGAATCAATTGTGGACTTAACTTCAAGCAAGTATGCTG                         CTTGGTCGGTGGAGGTGGCTGAACGTACTGCTTCCTTAGTTGCAAGCTGGC
genomic: AGGAGAACAAGATGAATCAATTGTGGACTTAACTTCAAACAAGTATGCTGgtgagtactt ... attgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGC

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT

     ttttttttttgttttt  TA-rich tract

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