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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAGgtccaacttctctttcccattcctaataatcacggaaagcatagctacctctgctaataggatgaatcatgcagctcttgttcactgtttctgttgtttcacctggtttgcag

Basic information

species Vitis vinifera
transcript Vv00s0301g00030.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: LOC_Os07g37740.1 (Oryza sativa), 5'ss of exon 12
ATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAGgtccaacttctctttccca-----ttcctaataatcacg--gaaagcatagctacctctgctaata---ggatgaatcatg-cagctcttgttcactgtttctgttgtttcacctggtttgcag-------------------------------------------------------------------------
|||||||||||  |||| |||||| ||||||| || |||||| ||||||||||||||||||| ||||||   | |     |  ||     | |||     |||      |||  |  ||| |  |||  |||     ||  ||  |   |  ||| |     ||| |||      ||   |  | |  |                                                                          
ATCTTCTACTTTGTTGGATTTGGATTGTTCTGCGTCGAATCATTGCTCAGCATCTGGGTTATCCAGgtcagtcctgcgaataacaaatactccctccgtttcatattataagactttctagcattgcccatattcatatagatgttaataaatctagacatatgtgtctagaaagtcttataatataaaacggagaaagtatgtttttatgaaataaattctcaagtagtctatctgagccgttttgacatttgtgaatgcag

upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G169773_T01 (Zea mays), 5'ss of exon 10
ATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAGgtccaacttctctttcccattcctaataatcacggaaa------gcatagctacctctgctaataggatgaatcatgcagctcttgt-tcactgtttctgtt---gtttcacctggtttgcag-----------------------------------------
|| || ||||||||||| ||||||||||||||  |||||||| |||||||||||   || ||||||||     |  | |||     |  |  |   |   |||       |  |||  |  |    ||  |  |||     |    ||| ||  |||   | ||| ||   ||||||  |  | |  |                                          
ATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAGgtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgtttcag

upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G041181_T01 (Zea mays), 5'ss of exon 12
ATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAGgtccaacttctctttcccattcctaataatcacggaaagcatagctacctctgctaataggatgaatcatgcagctcttgttcactgtttctgttgtttcacctggtttgcag
|| ||||||||  |||| |||||| |||||||| | |||||| |||| ||||||||||| || ||||||    |||| ||  | |    |   | |  |   || ||     || ||    | |  ||   |   ||   |  || |  || |  |                       
ATATTCTACTTTGTTGGATTTGGACTGTTCTGTCTGGAATCATTGCTTAGCATCTGGGTCATCCAGgtcagttttctattatcaaccgttctaattttcctgaacca-----acttc----agtgtgacatact-tgagccctttttggaccgcgtgcag-------------------

upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA13G25460.1 (Glycine max), 5'ss of exon 11
ATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAGgtccaacttctctttccca--ttcctaataatcacggaaagcatagctacctctgctaataggatgaatcatgca---gctcttgttcactgtttctgttgtttcacctggtttgcag-----
||||||||||||||||| |||||| ||||||| |||||| |  || ||||||| ||||||||||||||   ||| | |||    |  || | ||| |||      |      | | |  |   |||   |||| |     |     |       ||    ||   | ||||   ||||||||       
ATCTTCTACTTCATTGGATTTGGATTGTTCTGCGTTGAAACTTTGATCAGCATTTGGGTTATTCAGgtttgactacacttcttgaactttccaatcatcttaagcacatgcaccagcattttgaatgccatgatttccttatgaattaccacataccaactc-actatttc-tttggtttgctatacag

upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA15G07480.2 (Glycine max), 5'ss of exon 11
ATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAGgtccaacttctctttcccattcctaataatcacggaaagcatagctacctctgctaataggatgaatcatgcagctcttgttcactgtttctgttgtttcacctggtttgcag
|| ||||||||  |||| |||||| |||||||  ||||| || || |||| ||||||||||||||||| | | |   | |    ||   |    |    |||||   ||  || | ||   | |      || ||   || |  |||||||| ||| | | ||| ||    |       
ATTTTCTACTTTGTTGGATTTGGATTGTTCTGCATTGAAACATTGATCAGTATCTGGGTTATTCAGgttcgaatatacatctgaatatttttggaaagtggaaa---tacttagcactttgactgaacataaccaa--agttaatgttcactttttgtttggttgcatacag-------

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|110694691|gb|EE072020.1|EE072020
EST:     GGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG                         CAAGTATATATGTACTTCCGAGGCAGTGGCAAAGCAGCTGAGATGAAGCGT
genomic: GGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAGgtccaacttc ... tggtttgcagCAAGTATATATGTACTTCCGAGGCAGTGGCAAAGCAGCTGAGATGAAGCGT