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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC

Basic information

species Vitis vinifera
transcript Vv16s0013g02020.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os05g19370.1 (Oryza sativa), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
|| ||| ||      |||| | |    |  |  || || |||      || |     |  ||   | ||  ||  || ||| |||        || ||||     |||||| |||||||||||||||||||||||||||| |||||| || || |||||||||||| ||||| | ||| | ||||||||||| |||||||| ||  |
gtgagctcctcctcctcctccgcctgttcctcgtcgacctccccctacatctc----tcctctcttctgatgcgcccggtttttgctg-----cgaggtg----cagGGGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACCGCCAGCAGCCGGC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g40180.1 (Oryza sativa), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttct-ctacttccaagcggatattagggttttccgatttgtggcttcctgttatt--ggcattgttcgtggtggcat---tagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
|| ||| ||      |||  | |   ||   ||    |||  |      |  ||         | |  |    ||  ||  |  |  | | |   ||||  ||   |    ||| || |||||||||||||||||||||||||||| |||||| || || |||||||||||| ||||| | ||| |||||||||||||  | ||||| ||  |
gtgagctcc---tcctccgacgccgcctccctccatcactctcgtctccagtttcccacccctccacctccatctctctcctgatccgtcctccgtcgttttgctgtgcacagGTGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGGTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G034794_T02 (Zea mays), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
          |||| || |     |   |  |  |  || | |  || ||    |||| || |  | ||| |  || | || |          ||  ||||||  ||| || ||||||||||| |||||||||||| ||| |||||| |||||||||||| ||||| ||||| | ||| | |||||||||||  | ||||| ||  |
-------gtgagctctcgtatttaccgctgatggcctctccgattcgcatgcgtgggtcttaccgtgtgtcgtatcattttgt----------cgctgtggcac-agGTGCGTACAAGTACGTCTCGGAGCTATGGCGGAGGAAGCAGTCCGATGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
          || | ||    ||       |   | | |  || ||      | || |||| || | ||| || ||            ||  |||  |||||   |||||| |||||||| || |||||| ||||||||| |||||||||||| |||||| ||||| ||||| | ||| | |||||||||||  | ||||| ||  |
-------gtgagttctcggctacaaggccgtctccgattcgcatgca-----tgggtttttacggtatgttgcatc-----------gtttctcgctgtggcgc-agGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G024354_T01 (Zea mays), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
|| ||||   |   |||  |           ||||| | | || ||| |         ||| ||  | ||  ||  ||| || |     ||||||| | |     |||||| ||||||||||||||||| |||||||||| |||||| || || |||||| | ||| ||||| | ||| | |||||||||||  | ||||| || ||
gtgagca---aatgttctgtgg---------tctctccgtgcaggcgaac-------ctttgcgcgtcgtctctctctgatagt----ctgttcgtcgcg----cagGGGCGTACAAGTACGTGTCGGAACTATGGAGGAGGAAGCAGTCGGACGTGATGCGCTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGTC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G084757_T01 (Zea mays), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
|| ||  |   ||  | |  | ||       ||||   |||   ||   | |  ||| ||| || | ||| ||  |            ||  |||  |||||   |||||| ||||||||||| |||||| ||||||| | |||||||||||| |||||| ||||| | ||  | ||| | || ||||||||  | ||||| ||  |
gtgagttcttggccctac--cgctgatgccctctccgattc---gcatgtgt-ggggctttacggtatgttgcacc-----------gtttctcgctgtggcgc-agGGGCGTACAAGTACGTCTCGGAGTTATGGAGAAGGAAGCAATCCGACGTGATGCGGTTCGTTCAACGCGTGCGCTGTTGGGAGTACAGGCAGCAGCCGGC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G04870.1 (Glycine max), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttg---tggcttcctgttattggcattgttcgtg---gtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
           || || |||   |  | ||||  ||| |  |||| | |  |  |  || |  | ||||   ||  |     ||  |    || || |     || ||| |||| ||||||||||| || |||||||||||| | |||||||| || ||||| ||||| ||||||||| ||||||||||||||||||| |||||||| |||||
-----------gcctttctttcatagcatttttgctatt--caagtgaaattaggcattgtttgttttggaatgagtgaaaattgattattttattggaatatgttgcaatagGTGCTTACAAGTATGTTTCGGAGCTATGGCGCAAGAAGCAGTCTGATGTTATGAGATTCTTGCAGCGGGTGAGGTGCTGGGAGTACCGCCAGCAACCTTC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G15230.1 (Glycine max), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcg-gatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
       |  |  ||||  | | |     |   |   ||| | | |     |||   ||| | | | | |    |     ||||| |  ||| |    || ||| |||| || |||||||| || |||||||||||| | |||||||| || ||||| ||||| ||||||||| |||||||||||||||||||||||||||| |||||
-----tgctga--tttctattagttatgctggttgagctttctatcatagcatttttgttattctagt-gaaattaggcattatttgtgttggtttatgttgcaatagGTGCCTACAAGTATGTTTCGGAGCTATGGCGCAAGAAGCAGTCTGATGTTATGAGATTCTTGCAGCGGGTGAGGTGCTGGGAGTATCGCCAGCAACCTTC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G41620.1 (Glycine max), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
      |   ||||||   | | |||  |    |    |      |   | || |   | |   | |||      | |||| ||    ||| |     ||||| |||| || |||||||| || || ||||||||| | |||||||| || ||||| ||| | ||||||||| |||||||||||||||||||| | ||||| |||||
----atatatagcttttggttattctgatggaattatgtgtggtacctgtgttggaagtgt---aattgataaaacgtgttgtttatgttggtgtgattggcaatagGTGCCTACAAGTATGTTTCAGAGCTATGGCGCAAGAAGCAGTCTGATGTCATGCGCTTCTTGCAGCGGGTGAGGTGCTGGGAGTATAGGCAGCAACCTTC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G17390.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggc--attgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
         | | ||  |   | | ||| | ||||   |  |       ||||   |||       || | |       |||  |    | |||   |  ||     ||| || ||||| ||||||||||||||||||||||||||||| || ||||||||||||||  | |||||||| ||||| ||||||||||||||||| |||||
-------gtatgtttctcactattatctctctctcagatgtcgtttctgtatt---gttcattagattctagaagttaattaaggatgaaatgtgatttttgattacagGTGCGTACAAATACGTGTCGGAGCTATGGAGGAAGAAGCAGTCGGATGTGATGAGGTTTCTTCAGAGGGTTAGGTGTTGGGAGTATCGCCAGCAGCCTTC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G16720.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------gtaagcaccaagctttccttcactctcttt---ttctctact-tccaagcggatattagggtt-ttccg-atttgtggcttcctgttattggcattgttcg--tggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
                                | |   ||   | || |||   ||  ||    ||||| | | |     |  ||  |     | || || || |||   | |    || |    ||  |    || | |   |||| || |||||||| || || ||||||||||||||||| || |||||||||||||| ||| | |||||||| ||||||||||||||  | ||||| |||||
gtaaatccttcttctccatcccttcttctagatcaaatcctctcgtttcttagatcgattcagcttctccattgtttgttcaaatgatgtttctgttacgtatctgttattgcaaactacttagcttaatgatttgattgatatagGTGCGTACAAGTATGTATCTGAGCTATGGAGGAAGAAACAGTCCGATGTGATGAGATTCCTCCAGAGGGTTAGGTGCTGGGAGTACAGACAGCAACCTTC

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ27946 (Selaginella moellendorffii), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
                            |   | || ||  | | | |    |  ||   ||  |||| |  ||  | | |  | |||||  |     |  |   ||| || ||||||||| |   |||||||||| ||||||||||||||||||||||| | ||| ||  | | ||  | ||||||||||||||||||| |||   
---------------------------gtaagcactgct--cgatcag---ctcaggcgctcgcatttct--ctcgcggctgatcgcattccttcctctctctccagGTGCCTACAAGTACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ36722 (Selaginella moellendorffii), 3'ss of exon 1
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
                            |   |  | ||  | | | |    |  ||   ||  |||| |  ||  | | |  | |||||  |     |  |   ||| || ||||| ||| |   |||||||||| ||||||||||||||||||||||| | ||| ||  | | ||  | ||||||||||||||||||| |||   
---------------------------gtaagcgttgct--cgatcag---ctcaggcgctcgcatttct--ctcgcggctgatcgcattccttcctctctctccagGTGCCTACAAATACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

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|77577251|gb|DV217329.1|DV217329
EST:     GCTGCAGCTCTTCAGCCGAACACAATGG                         GGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
genomic: GCTGCAGCTCTTCAGCCGAACACAATGGgtaagcacca ... gtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
EST: gi|161708611|gb|FC061307.1|FC061307
EST:     TCTTGCTGCAGCTCTTCAGCCGAACACAATGG                         GGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
genomic: TCTTGCTGCAGCTCTTCAGCCGAACACAATGGgtaagcacca ... gtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
EST: gi|77584870|gb|DV221515.1|DV221515
EST:     GCCGAACACAATGG                         GGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
genomic: GCCGAACACAATGGgtaagcacca ... gtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
EST: gi|77585149|gb|DV221663.1|DV221663
EST:     GCAGCTCTTCAGCCGAACACAATGG                         GGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
genomic: GCAGCTCTTCAGCCGAACACAATGGgtaagcacca ... gtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
EST: gi|71876495|gb|DT025550.1|DT025550
EST:     GCTGCAGCTCTTCAGCCGAACACAATGG                         GGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
genomic: GCTGCAGCTCTTCAGCCGAACACAATGGgtaagcacca ... gtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
EST: gi|351023690|gb|FQ448241.1|FQ448241
EST:     CTGGCATTCCTCTTGCTGCAGCTCTTCAGCCGAACACAATGG                         GGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA
genomic: CTGGCATTCCTCTTGCTGCAGCTCTTCAGCCGAACACAATGGgtaagcacca ... gtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC
                         tgttatt  TA-rich tract