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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgttaatgttggtaggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag

Basic information

species Vitis vinifera
transcript Vv06s0004g06860.t01
intron # 26
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 26
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaat--ttat----tttgttaatgttggtaggcttcataagcagaacatgtaca--taagatctagtgatgcgtgtggacag
| | || ||||   || |||| || |||||||| ||||| ||||| || |||||  | ||||||||||| |||||||| |||||||| ||||| |||||||| | || ||||  ||  || |     || || |||||  |   | |  |      |   || | |  |||   || |  |||| | ||  |||
ATCTTTGAATGAGCTTTATGTTGAAGAGGAGGATTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAGAAGgtaa-agcgattagatgattgtactgcttattgatgttatttttccttttttttttattttgaataactaatggctgg-aatgcct-tgatcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 26
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaat--ttattttg-ttaatgttggtaggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag-----
||| || ||||   || |||| || |||||||||||||| ||||| || |||||  | ||||||||||| |||||||| |||||||| ||||| || ||||| | || ||||  ||  || |  || ||| || || ||   ||| |      |   | |    || | ||| ||    |  ||    |     
AGCTTTGAATGAGCTTTATGTTGAAGAGGAGGACTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAAAAGgtaa-agcgattatatgattgtactgcttattgatgttatttttcctttttt-attttattttgaataactaatggctggaatgccttgatcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgt------taatgttggta--ggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag---------------------
||| || || |   || |||| || ||||| ||||| || ||||| || |||||| | ||||||||||| ||||||||||| ||||| ||||| ||||||||   | | |   |  | || |||       || || || |   |   |  ||| |     ||| | ||     ||  |  |   | |    |                      
AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatt--------tattttgttaatgttggta-ggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag---------
||| || ||||   || |||| || ||||| |||||||| ||||| || |||||| | || |||||||| ||||||||||| ||||| ||||| ||||||||   | | |   |  |          | |||||  |||||  | ||  | ||    |       |   |   || || | |   ||||  |            
AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatgcgcagtgcctattgttgttgttgtaatggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgttaatgttggtaggcttcataagcagaacatgtac----ataagatctagtgatgcgtgtggacag
||| || ||||   || |||| || ||||||||||| || ||||| || |||||| | || |||||||| |||||||||||||| || ||||| |||||||| | | | |   ||  ||    |  | |  ||  |       |    |   | | ||     |||  || |  | ||   | ||  |||
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtg-caattcctgtcgctaccgcttttaatttaatagcatgtgttaatttat-tgagcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GRMZM2G062042_T02 (Zea mays), 5'ss of exon 11
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgttaatgttggtaggcttcataagcagaacatgtac----ataagatctagtgatgcgtgtggacag
||| || ||||   || |||| || || |||||||| || ||||| || |||||| | || |||||||| |||||||||||||| || ||||| |||||||| | | | |   ||  ||    |  | |  ||  |      ||    |   | | ||     |||| || |  | ||   | ||  |||
AGCCTTGAATGAACTTTATGTCGAAGATGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtg-caattcctatcgctaccgcttttaatttaataacatgtgttaatttat-tgagcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GRMZM2G395549_T01 (Zea mays), 5'ss of exon 11
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgttaatgttggtaggcttcataagcagaacatgtac----ataagatctagtgatgcgtgtggacag
                            ||||||||||| ||||| || |||||| | || | |||||| |||||||||||||| || ||||| |||||||| | | | |   ||  ||    |  | |  ||  |      ||    |   | | ||     |||| || |  | ||   | ||  |||
----------------------------GAGGACTATGAGAGACTCCGTGAATCAGTTGACACGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtg-caattcctatcgctaccgcttttaatttaataacatgtgttaatttat-tgagcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 26
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgttaatgttggtaggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag------------------------
||| || ||||  ||| |||| |||||||||||||||||||||||||  |||||||||||| ||||||| ||||| || |||||||| ||||||||||||||||     ||     |||| ||   |||  || ||   || | || | |||  |   |   | || | |   || || |||   |                        
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtga-----atcttccttatctttcaaat--tgctaaaattga-aatctgaatcttaccgagacatttgg--gtgtgtttggtttgcattttcattttctgttttcattt

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GLYMA14G37510.1 (Glycine max), 5'ss of exon 24
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttatt---ttgttaatgttggta-----ggcttcataagcagaacatgta-cataagatctagtgatgcgtgtggacag------
||| || ||||  ||| |||| |||||||||||||||||||||||||  |||||||||||| ||||||| ||||| || |||||||| |||||||||||||||| |      | || | |    ||| |||  |||  |       |||  | || |    | |   |||  | | |   ||   || |            
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtga-atcttccgtatctttcaaattgctaaaattgaaatctgaatcttactgagaaacttaggggtcatttggtttgaagaaatgtttttttttttttct

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GLYMA11G06720.1 (Glycine max), 5'ss of exon 26
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattga--atttattttgtt---aatgttggtaggcttcataagcagaacatgtacataagatctagtg-atgcgtgtggacag-----------------------------
 || || ||||  ||| |||  ||||| || |||||||| ||||| || |||||||||||| ||||||||||||| || |||||||| ||||||||||||||||     | | |   ||| | || ||   |   || | |    ||   | |||||  | ||    | || ||    ||  |  |    |                              
GGCTTTGAATGAAATTTATGCTGAGGAAGAAGACTATGACAGACTCCGTGAATCAATAGATCTGCATGATAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttacttatcttttgtcttattttgacaattagcaaaaatcgagatcagaatgt-tatgggaaatttaaaatatttgaattattattgattggcttcaacaatacacatgagcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
lower sequence: GLYMA01G38580.1 (Glycine max), 5'ss of exon 26
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgag----agagattgaatttattttgttaatg-ttggtaggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag-------------------------------
||| || ||||  ||| |||| ||||| || ||||| || ||||| || |||||||||||| ||||||| |||||||| |||||||| ||||||||||||||||      |  ||    | | || | || |   || | |   |     | ||| |  | ||   || || ||   |   || || |                                  
AGCTTTGAATGAAATTTATGTTGAGGAAGAAGACTACGACAGACTCCGAGAATCAATAGATTTGCATGACAACTTTGATCAGATAGGTCTTGCACAGAAGgtgaatctcggttatcttttgtcttattttgacaattagcaaaatctgagatcaggaagt-tatggaaaattta---aaatgtttgaattattattgattggcttcaacaatacatgagcag

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|30251298|gb|CB969031.1|CB969031
EST:     AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAG                         GTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
genomic: AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagaga ... gtgtggacagGTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
EST: gi|30252045|gb|CB968684.1|CB968684
EST:     AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAG                         GTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
genomic: AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagaga ... gtgtggacagGTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
EST: gi|349826023|gb|FQ415828.1|FQ415828
EST:     AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAG                         GTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
genomic: AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagaga ... gtgtggacagGTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
EST: gi|351040418|gb|FQ434551.1|FQ434551
EST:     AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAG                         GTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
genomic: AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagaga ... gtgtggacagGTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
EST: gi|110699699|gb|EE076936.1|EE076936
EST:     AATAGATATGCACGATAACTTTGACCAGATAGGCCTTGCACAGAAG                         GTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
genomic: AATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagaga ... gtgtggacagGTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTAT
EST: gi|110695085|gb|EE072702.1|EE072702
EST:     AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAG                         GTTGAGAAACATGAGCTTCTGGAGATGAAGCGTATTGCTGCTTATATTTAN
genomic: AATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagaga ... gtgtggacagGTTGAGAAACATGAGCTTCTGGAGATGAGGCGTATTGCTGCTTATATTTA-