ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtattttatttatagtattatcatagttcccatggttttagttttttaggggagacggtggtggtggtgcag

Basic information

species	Vitis vinifera
transcript	Vv11s0037g00040.t01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os06g08500.1 (Oryza sativa), 5'ss of exon 4

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttg---tattttatttatagtattatcat-agttcccatggttttagttttttaggggagacggtggtggtggtgcag
||||||||||| || |||||||| |||||||| ||||| ||||| ||||||||||||||||| |||||  || |      ||| | | | |   |      | || |   || | |      |   |  |     |    ||     ||||
ACGGACAAGGCGTCGATGCTGGACGAGATCATCGACTACGTCAAGTTCCTGCAGCTCCAAGTCAAGgtgatcatcaatcgattctgtgtgtttgagctcagtgagctaggatcgatcagacatgccatcgtgactgcctttgacaccgcag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5

----ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattc-cttgtattttatttatagtat---tatcatagttcccat--ggttttagttttt--taggggagacggtggtggtggtgcag-------
    |||||||||||||| |||||||| |||||||| ||||| ||||| ||||| || |||||||| |||| |  | | |  | |  |||  || ||    ||  | |||    ||  | ||||||||     ||  |  |    |  |  |  |   |       
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagtacagtattaatctgtttttagttcgagatactgacgtgtattttttttttttggtgaacag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os02g55250.1 (Oryza sativa), 5'ss of exon 5

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtat-tttatttatagtattatcatagttcccatggttttagttttttagggg---agacggtggtggtggtgcag
|| |||||||| || ||||| || ||||||||||| ||||| || ||||| ||||||||||| |||||| ||      |  || | || ||    || |       | || |  || |   ||||        | |       | | ||||
ACCGACAAGGCATCGATGCTCGACGAGATCATTGATTATGTGAAGTTCCTCCAGCTCCAAGTCAAGgtaatctaaccctgcttttctacagatagatgaattcctgcctgttgctaataagttagtcccttgaatgtctcaaatcgcgcag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G027563_T02 (Zea mays), 5'ss of exon 4

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGg------tattccttgtattttatttat-agtatta----tcatagttcccatggttttagttttt-taggggagacggtggtggtggtgcag-------------------------------------
||||||||||| || |||||||| |||||||| ||||| ||||| ||||| ||||||||||| ||||      ||| | | | || |||  |   ||| ||     || | ||  |  |||  |   |     |    || ||| || || || || ||                                     
ACGGACAAGGCGTCGATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAGCTCCAAgtcaaggcaagcatatgcatggaatgttaaatgccagtgttcgtgttcctggtagcagtggactcgatccagatgtatgatacgatgttgttgatggagttgctgacatgtaatctgcgcttgccaatccacgcag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G067654_T01 (Zea mays), 5'ss of exon 5

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgt-attccttgtatttta---tttatagtattatcatagttcccatg-gttttagtttttta-ggggagacggtggtggtggtgcag----------------
||||||||||| || |||||||| |||||||| ||||| ||||  ||| ||||||||||||| ||||| || |  | || ||     || ||    ||     ||| |    | ||   |||    || | |  |||| | || ||| ||                   
ACGGACAAGGCGTCGATGCTGGACGAGATCATCGACTACGTCAGGTTCTTGCAGCTCCAAGTCAAGgtgatgctatttagttggcagttcatgtctttgattcagtgcgatcgagtgccagtgcagtacgtgctgacgttagttgtgctgtgcattgcattgcgcacag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM5G832135_T01 (Zea mays), 5'ss of exon 1

----------------------------------ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtattttatttatagtattatcatagttcccatggttttagttttttag-gggagacggtggtggtggtgcag--------------------------------------------
                                  || |||||||| || ||||| || |||||||||||||| || || ||||| ||||||||||| ||||||||  |  | | |   |    | |   |       |   | | | |     | | | | | ||||     | |  |  |                                             
TCGCTGAAACGATCATATGGAACTTTGTTTGCAGACCGACAAGGCATCGATGCTTGACGAGATCATTGACTACGTGAAGTTCCTCCAGCTCCAAGTCAAGgtatttttgttttctgcctcgctgcaccgttcc--cccagctagctatgtcactgtggcgtgggacgagctcgctcctaaaactatcttgtccagatccttcgtgactgttccccgtctcttgcag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G316758_T01 (Zea mays), 5'ss of exon 4

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtattttatttatagtattat-catagttcccatggttttagtttt-ttaggggagacggtggtggtggtgcag--------------------------------------------------------------------------
|| |||||||| || ||||| |||||||| |||||||| || || ||||| ||||||||||| |||||| ||||| |    |  || |  |  ||  | ||| |  ||       | |  |  |  ||||   | |  |                                                                                    
ACCGACAAGGCATCGATGCTTGATGAGATTATTGACTACGTGAAGTTCCTCCAGCTCCAAGTCAAGgtactccttctgcagttcttctcttcctacacctagctagcagctaggcaatgctgctgtgggacgtgttcctaaacccttctcatcattcgggcaccaaaaaaaatttcttcagaattcatgagccctcatacgttcgttccccggtcttttgcag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G350165_T01 (Zea mays), 5'ss of exon 5

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtattttatttatag----tattatcatagttcccatggttttagttttttaggggagacggtggtggtggtgcag
||||||||||| || |||||||| |||||| | ||||| ||||| ||||| ||||||||||| |||| |  | |   || |||  |  ||    | ||     |||| |     | | |  |   |     |  |   |   |  |     
ACGGACAAGGCGTCGATGCTGGACGAGATCGTCGACTACGTCAAGTTCCTTCAGCTCCAAGTCAAGgcaagcatgaaatgttaaatgcagctgttgttgatggagttgctgacatgtaatctgcgtttaccaacccacgtacgcag-----

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA17G08300.1 (Glycine max), 5'ss of exon 5

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtattttatttata-gtattatcatagttcccatggttttagtttttta-----ggggagacggtggtggtggtgcag-------------
|| |||||||| || ||||||||||||||||| || ||||| || ||||| ||||||||||| |||||  || ||    ||| ||| ||   ||| |  || |    |     ||     |  |     |   | |  |  ||  | || |               
ACTGACAAGGCCTCCATGCTGGATGAGATCATCGATTATGTGAAGTTCCTACAGCTCCAAGTCAAGgtgatcattcccctttgtttctacaaatttttttaataaataaaagattgaggataaaaatatgaataaaaagaagtactagtaccataataatttcatg

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA09G14380.1 (Glycine max), 5'ss of exon 5

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtat-tttatttatagtattatcatagttcccatggttttagttttttaggggagacggtggtggtggtgcag--------------------
|| |||||||| || ||||| ||||||||||| || || || || ||||||||||||||||| |||||   | |      ||| | | | ||| || |||   |    | | ||| |||  | |   |   |  |  |  | |   |                     
ACAGACAAGGCATCCATGCTAGATGAGATCATCGATTACGTGAAGTTCCTGCAGCTCCAAGTCAAGgtgcgcatcccgcgtttttctcttgtactagcatttctttatttgattttgttcctcatcagcatcaat--taatagcatattttaattaccccagttgatt

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA15G33020.1 (Glycine max), 5'ss of exon 5

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtat--tccttgtattttatttatagtattatcatagttcccatggttttagttttttaggggagacggtggtggtggtgcag-----------------------------------------------------------------------------------------------------------
|| |||||||| || ||||| ||||||||||| || || || || ||||||||||||||||| |||||    | |  |  ||||| |  | ||| || |||   |    | | ||| ||   | |   |   ||   ||  | |   |                                                                                                            
ACAGACAAGGCATCCATGCTAGATGAGATCATCGATTACGTGAAGTTCCTGCAGCTCCAAGTCAAGgtgcgcttcccgcgttttactctt-gtactagcatttcttaatttgattttgtacctcatcagcatcga--gtaatagcatattttaattacccaagttgattatttaattagaggctctaagtatgggcttgtgcttattaaattccactgatccctaacctcaattgagtaattaaattgtgttacag

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT4G30980.1 (Arabidopsis thaliana), 5'ss of exon 4

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgt--attccttgtattttatttatagtattatcata---gttcccatggttttagttttttaggggagacggtggtggtggtgcag--------------
|| ||||| || |||||||| |||||||| || || |||||||| ||| | ||||||||||| |||||  ||  ||     | | | | | | |||||  ||   | |   |   |||||  ||| |    |  |     ||||  |                   
ACAGACAAAGCATCAATGCTCGATGAGATTATCGATTATGTCAAGTTCTTACAGCTCCAAGTCAAGgtgaatctctctctctctctctctcgaattattttataagatatgagaattttaaatttgtttttgttataagagtggaagcttctttacctttgagttg

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: PP1S209_22V6.2 (Physcomitrella patens), 5'ss of exon 4

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtat---tccttgtatt--ttatttatagtat-tatcatagttcccatgg--ttttagttttttaggggagacggtggtggtggtgcag-----------
|| || ||||| || ||||||||||| ||||| ||||||||||| |||||||| || |||||||||||||   |  | |||||   || | | | ||| | |  | | |  | ||   ||||  | ||| |  |  | | ||       |    |           
ACTGATAAGGCGTCTATGCTGGATGAAATCATCGACTATGTCAAGTTCCTGCAACTTCAAGTGAAGgtatgactgttagtattatctagtcaaaatatatgtggttgctggcttgacattttgctatttaaatgatgcccgtcacatgaggagggtatccagcata

upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: PP1S173_83V6.1 (Physcomitrella patens), 5'ss of exon 4

ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttgtattt-tattta--tagtattatcatagttcccatggttttagttttt--taggggagacggtggtggtggtgcag---------------------------------------------------------------------------------
||||| ||||| || ||||||||||| ||||| || || ||||| |||||||| |||||||| |||||     ||  |    |||      |  | |  | | |||  |  ||||| |  | ||  |     | ||| |     |    ||                                                                                  
ACGGATAAGGCGTCGATGCTGGATGAAATCATCGATTACGTCAAGTTCCTGCAACTCCAAGTAAAGgtgagagttacaaacatatccggtcaagacttccgtggtttgc-cggtttgacatgttgctgcttcacacgataagtttctcacaatcacaccatgcttaagtgttaaatttcttatctgtttgtctaaaactggaattcaattttgttggatggtgggcttggcag

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|294964363|gb|GW838166.1|GW838166

EST:     TGCTGGATGAGATCATCGACTATGTCAAATTCCTGCAGCTCCAAGTGAAG                         GTACTCAGCATGAGCAGGTTGGGCGGTGCCGCAGCTGTTGCTCCCCTCGTT
genomic: TGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattccttg ... ggtggtgcagGTACTCAGCATGAGCAGGTTGGGCGGTGCCGCAGCTGTTGCTCCCCTCGTT

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