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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgcatttagaatatccaaattgaaaattccaggattacaatgggtacattttaacaagcagtttcttttcttttcctcctttttgttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCGACACCTCCCCCTTCTTCTCTAAGCCTTTCTTCCCCCAAATTTGCACCAC

Basic information

species Vitis vinifera
transcript Vv00s0652g00030.t01
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0652g00030.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G009849_T02 (Zea mays), 3'ss of exon 33
gtctgcatttagaatatccaaattg-aaaattccaggattacaatgggtacattttaacaagcagtttcttttcttttcctcctttttgttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCGACACCTCCCCCTTCTTCTCTAAGCCTTTCTTCCCCCAAATTTGCACCAC---
       ||   ||| ||    ||| |  | |    | ||   ||    |  || |   | | |   |    | |  |     | ||||   | |||| ||||||||||||||||||||||||| || || || ||  | ||  |||| || || |||||     |   ||   |  |||| || ||||| |||||     
------gttggtaatctcagttttggaggagtttgagcttgttattttaattttgtttgaggtacgattgaatttaattacgttgtttgcaat-gcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCCACGCCACCCCCAATAGCAGCAA---TACCTTCTCCAAAATTGGCACCGTCCC

upper sequence: Vv00s0652g00030.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G068755_T01 (Zea mays), 3'ss of exon 51
gtctgca--tttaga-atatccaaattgaaaattcca------ggattacaatgggtacattttaacaagcagtttcttttcttttcctcctttttgttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCGACACCTCCCCCTTCTTCTCTAAGCCTTTCTTCCCCCAAATTTGCACCAC---
|| || |   | ||  || |       |    ||         |  ||   |||| |    ||| ||   |  ||  |||  ||     | || ||  |  ||||| ||||||||||||||||||||||||| |  || || ||  | ||  | || || || |||||     |   ||   |  |    || ||||||||||||    
gtttgtaacctcagtcatgttggggcggggggttgggcttgttgctttgttatggatgttgtttgacgtacgattgatttaatta----cattgtttgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCCACGCCGCCCCCAATAGCAGCAA---TACCCAATCCAAAATTTGCACCATCCC
















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|27585437|gb|CB008132.1|CB008132
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|161716243|gb|FC066506.1|FC066506
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTG
EST: gi|110724440|gb|EE100271.1|EE100271
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|110731172|gb|EE109088.1|EE109088
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAA                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|30301267|gb|CB978061.1|CB978061
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|30299345|gb|CB976139.1|CB976139
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|161712847|gb|FC062022.1|FC062022
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|71882640|gb|DT031695.1|DT031695
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|30301485|gb|CB978279.1|CB978279
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|77588937|gb|DV223719.1|DV223719
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|71886760|gb|DT035815.1|DT035815
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|71889922|gb|DT038977.1|DT038977
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
EST: gi|71886201|gb|DT035256.1|DT035256
EST:     AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAG                         ATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG
genomic: AAAATGCTAGTGAGGCGTTTCGGACTTATATCAGGGATGGGTTAGCCCAGgtctgcattt ... gttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgggtacattttaacaagcagtttcttttcttttcctcctttttgttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCGACACCTCCCCCTTCTTCTCTAAGCCTTTCTTCCCCCAAATTTGCACCAC
         ttttaac  putative branch site (score: 2)
                   cagtttcttttctttt  putative PPT
     tacattttaa  TA-rich tract