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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtagattttcatattttcgcagacccgagctttcaccatttgttttgagaagaaaagcatacacaaaagatatgtaaccttcattcttgtaaataacagGGAGGGAAAATAATCTTCTTCCAAAGCCTCAGCCTTCTGGGCTACTGCCTGTTTCCTCTGGACATAGGAGCCCTGATTTGCCTGTTCAAAGGCCATTTCA

Basic information

species Vitis vinifera
transcript Vv09s0018g01790.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0018g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g64760.1 (Oryza sativa), 3'ss of exon 2
gtatgtagattttcatattttcgcagacccgagctttcaccatttg-ttttgagaagaaaagcatacacaaaagatatgtaaccttc-----attcttgtaaata-------acagGGAGGGAAAATAATCTTCTTCCAAAGCCTCAGCCTTCTGGGCTACTGCCTGTTTCCTCTGGACATAGGAGCCCTGATTTGCCTGTTCAAAGGCCATTTCA
|||   |||| |       |  |   |  |  || ||||   |     | ||   | | |  |||     || | | |     |||      ||| |||| |||        |||||| ||| | || ||||||||||| |||||||| ||||| |||||||| ||||||||||||||  | ||||| ||  ||||| || | || | | || |||
gta---agatctctccccctcagtgaatgcctgccttcaatttgcaactctgcagaaatagtcatgtgataatgttgtagtgtcttgtaatgatttttgtcaatgtttccctacagGGTGGGCACATTATCTTCTTCCAGAGCCTCAGTCTTCTTGGCTACTGTCTGTTTCCTCTGGATGTTGGAGCTCTAGTTTGCATGCTGAAGGACAATGTCA

upper sequence: Vv09s0018g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G129234_T01 (Zea mays), 3'ss of exon 2
-----------------------gtatgtagattttcatattttcgcagacccgagctttcaccatttgttttgagaagaaaagcatacac-aaaagatatg-taaccttcattcttgtaaataacagGGAGGGAAAATAATCTTCTTCCAAAGCCTCAGCCTTCTGGGCTACTGCCTGTTTCCTCTGGACATAGGAGCCCTGATTTGCCTGTTCAAAGGCCATTTCA
                        | | |    ||  || |   | |||  || |  || |   ||  | ||  |   ||  | |  ||     || || || | |   |  |  | ||     |||||| ||||| ||||||||||||||||||||||| ||||| || ||||| ||||| || |||||| | || || ||||||||| || | || | |  | |||
gtacgcccctcctctcctctattctctcttatattgtatctggccacagcacccatattgccatatcagcttatacctgagtacctgacgttgcaatatttggtgatggttgtaatggtttggtacagGGTGGGAACATAATCTTCTTCCAAAGCCTCAGTCTTCTCGGATACTGTCTGTTCCCGCTGGACGTGGGGGCTCTGATTTGCATGCTTAAGGACAGTGTCA

upper sequence: Vv09s0018g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G100351_T01 (Zea mays), 3'ss of exon 1
--------------gtatgtagattttcatattttcgcagacccgagctttcac-------catttgttttgagaagaaaagcatacac-aaaagatatg-taaccttcattcttgtaaataacagGGAGGGAAAATAATCTTCTTCCAAAGCCTCAGCCTTCTGGGCTACTGCCTGTTTCCTCTGGACATAGGAGCCCTGATTTGCCTGTTCAAAGGCCATTTCA
               | | ||   | || |||| |  | | ||  |||   ||         ||  | ||  |   ||  | |  |||    || || || | |      |  | ||     |||||| ||||| || |||||||||||||||||||| ||||| || ||||| ||||| || |||||| | || || ||||||||| || | || | |    |||
gtacgcccctcctcttctctattctctcttattgtatctggccacagcgcccatattgccatatcagcttatacctgagtacctgacattgcaatatttggtgatggctgtaatggtttggtacagGGTGGGAACATCATCTTCTTCCAAAGCCTCAGTCTTCTCGGATACTGTCTGTTCCCGCTGGACGTGGGGGCTCTGATTTGCATGCTTAAGGACAGCGTCA

upper sequence: Vv09s0018g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G046025_T01 (Zea mays), 3'ss of exon 2
----------------------------gtatgtagattttcatattttcgcagacccgagctttcaccatttgttttgagaagaaaagca--tacacaaaagatatgtaacc-ttcattcttgtaaataacagGGAGGGAAAATAATCTTCTTCCAAAGCCTCAGCCTTCTGGGCTACTGCCTGTTTCCTCTGGACATAGGAGCCCTGATTTGCCTGTTCAAAGGCCATTTCA
                                 || |  | || ||    |  |     |  ||    |  | | | ||  ||  |||| |  | |  |  || | |  ||   || ||||       |  ||||| ||  | || ||||||||||||||||| || ||||| || || ||||||||||| |||||| | || || ||  ||||| || | || | | |  | |
gtaagaccttttttttctactcacaaacacggttacacatgcacatgactgttggagataaattgtctctgtggctgtgctaatcaaagtaccttcctagcagttctacaattgtttattcaatcgcttttcagGGTGGACACATCATCTTCTTCCAAAGCCTTAGTCTTCTTGGTTATTGCCTGTTTCCACTGGACGTTGGTGCTCTACTTTGCATGCTGAAGGACAACGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgagaagaaaagcatacacaaaagatatgtaaccttcattcttgtaaataacagGGAGGGAAAATAATCTTCTTCCAAAGCCTCAGCCTTCTGGGCTACTGCCTGTTTCCTCTGGACATAGGAGCCCTGATTTGCCTGTTCAAAGGCCATTTCA
                           atgtaac  putative branch site (score: 3)
                                       ttcttgt  putative PPT
                                      attcttgtaaataa  TA-rich tract