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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattgcaataaattatcctgtaccatttctatatttgatgttctcttgcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG

Basic information

species Vitis vinifera
transcript Vv01s0026g00340.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os08g19850.1 (Oryza sativa), 3'ss of exon 15
----------------------gtaatattgcaataaattatcctgtaccatttctatatttgatgttctcttgctta-ttatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG
                      | ||  |||  || | |  |  | | | |    | | |||     |   | |  || |||| |   |       | ||||| |||||||| ||||||||||| ||||| ||||| || || ||| |||| | ||||||  | |  |||||||| |||||||||||  |||||
acccaatcttgaagtctggctcgcaa-gttgtgattactggttgtttcctagcagtttttttatcccttattggtgtacttatttagatgtctacatgcagATCAATGAAGGTGATGGTGCCTTCTATGGTCCAAAAATTGATATTGGTGTGTTTGATGCCCTCAAGAGGAAATTTCAGTGTGCAACTCTACAG

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA02G03750.1 (Glycine max), 3'ss of exon 14
-----------------------------------------------------------------------------------------------------gtaatattgcaataaattatcctgtaccatttctatatttgatgttctcttgcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG
                                                                                                       | |  ||  | | || |    ||    |||   ||| | || |    |   ||||  |||| || |  |  | ||| | ||||||||||||||||| || |||||||||||||||||||| ||||| |||||||||||  |||||||||||||||||||||| || |||
gtaattatttcctcttctatatgtcttctagaatgtttcttgccagcgatatatagtttagaatattgtctggaacatatggctgtaattctgattagaacaaattcatgttagatatcaaaaagtgttgtttgcctatctcatttcaattcaattatattctgtgtaaaaccttgcagTTGAATGAAGGGGATGGTGCATTCTATGGACCAAAGATAGACATCAGTGTATCTGATGCATTGGGTAGGAAATTCCAGTGTGCAACTTTGCAG

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA01G03930.1 (Glycine max), 3'ss of exon 14
-----------------------------------------------------------------------------------------gtaatattgcaataaattatcct---gtaccatttctatatttgatgttctcttgcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG
                                                                                          ||  |||   ||    ||||     ||   ||||   ||| | || |    |   ||||  |||  || |  |  | ||| | ||||||||||||||||| || || ||||||||||||||||| ||||| ||||||||||| ||||||||||||||||||||||| || |||
gtaattatttcctcttctatatgtcttctagaatgtttcatgccagcgatatatagttaaagatattgttttgaacatatggcttctgattagaattcagattggatatcacaaagtgtaatttgcgtatctcatttcaattcaattatattctttgtaaaaccttgcagTTGAATGAAGGGGATGGTGCATTCTACGGACCAAAGATAGACATCAGTGTATCTGATGCATTGAGTAGGAAATTCCAGTGTGCAACTTTGCAG

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT5G26830.1 (Arabidopsis thaliana), 3'ss of exon 15
gtaatattgcaataaattatcctgtac-catttctatatttgatgttctc-ttgcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG
    |||||  |    || |    ||| |   | |||     | ||   | ||  || | || | ||   |  ||  ||| | || ||||| |||||||| |||||||| |||||||||||||| |  |||||||||||| | | |||||||||||||||||| || ||||||
---gtattgtcacttgttgttgaatactcgagtttattcacaaagtctgcattcattctaatgtaagctgttttg-gcagTTGAACGAAGGAGATGGTGCATTTTATGGTCCAAAGATAGACATCACAGTTTCTGATGCAATGAATAGGAAATTCCAGTGTGCTACTTTACAG

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT1G17960.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatattgcaataaattatcctgtaccatttctatatttgatgttctctt----gcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG
||| | |  || ||  || |  ||   |   || | | || ||  |   |     | || | |  || |   |  | |  ||||||| ||||| || ||||| |||||||| |||||||||||||| |  || ||||||||    | |||||||||||||||||| ||  |||||
gta-tgtgtcactactttctgatgcttctactcaaaactttataattcatagagagattctaaagtgtgatgttttctgaagATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAG

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: PP1S400_36V6.1 (Physcomitrella patens), 3'ss of exon 15
---------------------------------------------gtaatattgcaataaattatcctgtaccatttctatatttgatgttctcttgcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG
                                             |    |||   || | | |   |    | |   |   ||||   |       || | |   | | |||   ||| ||||| ||||||| ||||||||||||||||||||||||||| ||||| |  |||| ||||||||| |  || || || |||||||| ||| | |||
gtgagtatttcggctggtctttagcgatgtagattggagaacgttgggtaattagcatgattgaaagtacgtc-tgagttggtttgcgatggatcccctgaatcggttaatcaatgtgtgcagATTAATGAAGCGGATGGTGCCTTTTATGGACCAAAGATTGACATCACCGTTTTTGATGCATTGAAGAGAAAGTTTCAGTGTGCTACAATCCAG

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|30325956|gb|CD009218.1|CD009218
EST:     CTGAGGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGAAGCCGTGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
EST: gi|30325105|gb|CD008367.1|CD008367
EST:     CTGAGGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGAAGCCGTGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
EST: gi|32268540|gb|CD717699.1|CD717699
EST:     CTGAGGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGAAGCCGTGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
EST: gi|30323442|gb|CD006704.1|CD006704
EST:     CTGAGGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGAAGCCGTGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
EST: gi|32249386|gb|CD715205.1|CD715205
EST:     CTGAGGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGAAGCCGTGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
EST: gi|22011637|gb|BQ796671.1|BQ796671
EST:     CAGAGTGGGAAGCCATGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
EST: gi|110360907|gb|EC924350.1|EC924350
EST:     CTGAGGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGAAGCCGTGGGAG                         ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
EST: gi|156735898|gb|EV240019.1|EV240019
EST:     CTGAAGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGGAGCCGTGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGGACCAA-GATAGACATTAGTGT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGG-ACCAAAGATAGACATTAGTGT
EST: gi|30327091|gb|CD010353.1|CD010353
EST:     CTGAGGCTGCACTCACGGAAGCTTTGAATCAGAGTGGGAAGCCGTGGGAG                         ATAGATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT
genomic: CTGAGGCTGCACTCACGGAAGCTTTGGATCAGAGTGGGAAGCCGTGGGAGgtaatattgc ... tgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaccatttctatatttgatgttctcttgcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG
             atttgat  putative branch site (score: 5)
     atttctatatttgat  TA-rich tract