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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatccctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG

Basic information

species Vitis vinifera
transcript Vv10s0042g01220.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 2
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatccctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
                                               |  | || |||   ||   | ||  ||     |||   | |  | |||  |||    |   |  ||  |  ||  |       ||||| | |  |||| |||| |    ||||| || ||||| |||||||| ||||| |||||||| ||||| |||||||||||||| ||||||
----------------------------------------------tttgtgttgactaggga---cattgcaa-----tgttatgttatttgtcttctgattttgtgagcctcctgcatgggca-----tgatattctttgttg-ttttgtaacatcagGTACCATTGGGCATGTGGCCCATGGAAAGTCCACCGTTGTGAAAGCTATATCTGGAGTTCAG

upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 2
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatccctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattt-tatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
                                                    | ||   |    | | || |||     ||| ||  | ||   ||  | | | |  | | |||      |||  | |  ||| | | |   |   | | ||   ||||||| || || || |||||||| ||||| |||||||| ||||| || ||||||||||| ||||||
---------------------------------------------------ttgtataactagggacattgtaa-----tgt-tatattatttgcatatctgatttgtgaacttcctg--cagcggca--tgacattctttttcattctgtaaaatttcagGTACCATAGGGCATGTGGCCCATGGAAAGTCCACTGTTGTGAAGGCTATATCTGGAGTTCAG

upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G107654_T01 (Zea mays), 3'ss of exon 2
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatccctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
                                             | || |||  | |    || |   | || ||   | |  || |  |   |    | |   |     || |  || ||        | ||| |||   |  |    |   | ||||| || ||||| |||||||||||||| |||||||| ||||| |||||||||||||||||||||
-------------------------------------------agcttcctatgaattcggaaatggcctgtatatg--tattcagattttatgcgaaaggaggcctc---ctgtggtacca--------taatattttttctgca----aatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCCACTGTTGTTAAAGCTATATCTGGTGTTCAG

upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 2
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatc-cctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
                                                     ||| |   ||    |||  ||||  ||||| || ||  |       ||  ||     | ||  |     ||   ||  |  |  ||||     || |       ||||| || ||||| |||||||||||||| ||||| || ||||| || |||||||| || ||||||
---------------------------------------------------gcttattatgga----tttggaaatggcctgtatatgtattcaaattatgcgaaatgagaactcctgcgatagcataatatttttttttctacaaatatc------tcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG

upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G40750.1 (Glycine max), 3'ss of exon 2
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatccctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
                                                       |||  ||||  ||| |  ||| |     |     ||  |  | | |   || |   | ||| |    ||||| | ||||      | |  |||  ||| |  ||||||| || ||||||||||| ||||| ||||| |||||||| ||||| ||||| || || |||
-----------------------------------------------------aaactctagaa--cttaaataattctctcattaaaaatattgtgtt-tgcttcttttccatttgtgattgttgatgctgatg----taatgaattgcatcctgacagGCACTATAGGTCATGTGGCACATGGCAAGTCGACAGTTGTGAAAGCAATATCAGGAGTCCAG

upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G04170.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatccctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
                                                              || ||||| |  |  | | | ||   | || |  | || | |  ||     ||  ||| || | ||| ||||| | | |             ||||||| || ||||||||||| |||||||| |||||||| ||||| |||||||| |||||||| |||
------------------------------------------------------------gtaacgcttttttgagtcttttatataagttgat--gttgaagaaactggcagttcctataagctaaagatgatagtgtta-----------tgtttcagGAACCATTGGTCATGTCGCTCATGGAAAGTCCACTGTTGTTAAAGCTATTTCTGGTGTCCAG

upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 1
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatccctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataa---tttcagttgattttatctttt--cagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
            |       | |      |  |  |  | || |   |    | |         |  | | |   |   ||| | |  || ||     ||||     || | |  | |  | || |    |  |||   ||   |||||| || |  |     ||| |||||||| ||||||||||| |||||||| ||||| || || || ||||||||||| |||
-----------gtaagcgattaggggattccgatgtagggttcgaggttgggtgtgtcc---gtgcgtgtgtgtgtgtttgt-tcgccgagggaagcttgtagtatgtagtgtagtgtggcggtcggcaattttaagtgttgttgttgatgttgtggtggaatagGTACAATTGGCCATGTGGCTCACGGGAAGTCGACAGTAGTGAAGGCCATATCTGGTGTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
                                         ttttatcttttc  CT-rich tract
                                     ttgattttatctttt  TA-rich tract