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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtttgattctcgttcaacaagcattatatcatcgaagatcgcattctttaagatgaaaattctaaatgcttgtttgttttcggatttcacagGCCTGTGATTGATCAAAACTTTTACTACGCTGGTCTTAAATTCACATCACCCACTTTCTCCTGTGCCATGAGCAACATGCTCCCAGCTATGACATTTGTC

Basic information

species Vitis vinifera
transcript Vv08s0040g00800.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g00800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g33900.1 (Oryza sativa), 3'ss of exon 1
----gttagtgtttgattctcgttca-acaagcatt-atatcatcgaagatcgcattctttaagatgaaaattctaaatgcttgtttgttttcggattt---cacagGCCTGTGATTGATCAAAACTTTTACTACGCTGGTCTTAAATTCACATCACCCACTTTCTCCTGTGCCATGAGCAACATGCTCCCAGCTATGACATTTGTC
    ||  |  |   |   | |   | | | ||  | || |  | | | |     | || ||   | |       |   ||   | ||| |     |        ||||| ||||| ||||| || || |||||||| || || || ||||| || || || |||||||| |||||||||||||||||||| || ||||| || |||
gtacgtacgcatacaaaaattggagatatatgctctgattttttagcacagtatttgctctattctcacgcactgaccggccaatgtgtatgtatgtccacgtgtagGCCGGTGATCGATCAGAATTTCTACTACGCCGGGCTCAAGTTCACCTCGCCGACCTTCTCCTGCGCCATGAGCAACATGCTCCCGGCCATGACCTTCGTC

upper sequence: Vv08s0040g00800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G136567_T02 (Zea mays), 3'ss of exon 1
-----------gttagtgtttgattctcgttcaacaagcattatatcatcgaagatcgcattctttaagatg-----aaaattctaaatgcttgtttgttttcggattt---------cacagGCCTGTGATTGATCAAAACTTTTACTACGCTGGTCTTAAATTCACATCACCCACTTTCTCCTGTGCCATGAGCAACATGCTCCCAGCTATGACATTTGTC
           |   | | ||| ||||  | | |     |||      |  |   ||    |    || |          | ||| | ||| ||    | | || ||           |||||||| ||||| || || ||||| |||||||| || || || ||||| || || || |||||||| |||||||||||||||||||| || ||||| || |||
gtgcgtgcacagggggggcttggttctgttccga--gttattgcgctgtt-agtttcttgcttggcaaaactctgctctgactctgattgcatgcggctctgcgaatcgtttcgtgcgcacagGCCGGTGATCGACCAGAACTTCTACTACGCGGGGCTCAAGTTCACCTCGCCGACCTTCTCCTGCGCCATGAGCAACATGCTCCCCGCCATGACCTTCGTC

upper sequence: Vv08s0040g00800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G27760.2 (Glycine max), 3'ss of exon 2
gttagtgtttgattctcgttc-aacaagcattat--atcatcgaagatcgcattctttaagatgaaaattctaaatgcttgtttgttttcggatttcacagGCCTGTGATTGATCAAAACTTTTACTACGCTGGTCTTAAATTCACATCACCCACTTTCTCCTGTGCCATGAGCAACATGCTCCCAGCTATGACATTTGTC
||||||  ||  |||| | || |  || |  | |  || ||| || |   |||  | ||| ||        |   |  || ||| | ||  | | | | ||||||||||||||||| ||||| || || || ||  | ||||| || || || || | ||| ||||| || |||||||||||||| |||||||||||||| 
gttagtagtt--ttcttgctctagaaaacggtgttcattatccaaaaa-acatgttctaaaat--------ttgttttttttttctgttatgttgttatagGCCTGTGATTGATCAGAACTTATATTATGCGGGGTTGAAATTTACTTCCCCTACCTACTCATGTGCGATAAGCAACATGCTCCCTGCTATGACATTTGTG

upper sequence: Vv08s0040g00800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G30640.1 (Glycine max), 3'ss of exon 2
gttagtgtttgattctcgttcaacaag-----cattat-atcatcgaagatcg----cattctttaagatgaaaattctaaatgcttgtttgttttcggatttcacagGCCTGTGATTGATCAAAACTTTTACTACGCTGGTCTTAAATTCACATCACCCACTTTCTCCTGTGCCATGAGCAACATGCTCCCAGCTATGACATTTGTC
||||||  ||  |||| | || | ||      |||||| |||   | |    |    |||  | ||| ||      | |   | ||| ||| | ||| | | | | ||||||||||||||||| ||||| ||||| || || || ||||| || || || || | ||| ||||| || |||||||| || || || ||||||||||| 
gttagtaatt--ttcttgctctagaaagtgttcattatgatcgatgcaacctgaaaacatgttctaaaatttgttcttttctt-cttttttctgttctgttcttatagGCCTGTGATTGATCAGAACTTATACTATGCCGGGCTGAAATTTACTTCCCCGACCTACTCATGTGCGATTAGCAACATTCTTCCTGCAATGACATTTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgcattctttaagatgaaaattctaaatgcttgtttgttttcggatttcacagGCCTGTGATTGATCAAAACTTTTACTACGCTGGTCTTAAATTCACATCACCCACTTTCTCCTGTGCCATGAGCAACATGCTCCCAGCTATGACATTTGTC
                      ttctaaa  putative branch site (score: 2)
         tttaagatgaaaattc  TA-rich tract