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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatggtgaatctcaattttcaattcttcttgctttctttctttcttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT

Basic information

species Vitis vinifera
transcript Vv07s0031g03090.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g03090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g35870.1 (Oryza sativa), 3'ss of exon 8
gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggtt-gactatggtgaatctcaattttcaattcttcttgctttctttctttcttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT
                     | | |  |||      || |   |||     |   || ||||    || | ||  |  |  |  ||| ||||   |   || ||      | ||||| ||||||||| ||||||||||| |||||||||||||| ||||| ||||| || ||||| || ||||| || |||||||| || || || ||||| || 
--------------------gtaacgttaact----cccctatcttgaaatttaaatttgact----tgtagcttgaagtaaatgtctgcttgaactggctcctttca---tacagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGAC

upper sequence: Vv07s0031g03090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os09g27950.1 (Oryza sativa), 3'ss of exon 8
gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatggtgaatctcaattttcaattcttcttgctttctttctttcttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT
           ||  | ||  || | | ||||   | |     | |||   ||   | |  ||||   |||||| |  | | | | ||| |  || | | | |  || | | ||| | |||||| || || || ||||| | |||||| ||||| || || ||||| ||||| || || ||||| || |||||||| ||||||||||||||||| 
----------gtaaatattc-tggaaacaacataaaactact-tctggaagctccatcg--tatga--aatctctagatgctaatattcatttttccctgcatctttttat-cagAAATGTGAAATACCACGAGCCTGAGTTCTGGAAGTTTGGCGAAGACGGGAACAAGTATTTCCGCCATGCCACTGGGCAGATATATGCCATCTCAAAGGAC

upper sequence: Vv07s0031g03090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatggtgaatctcaattttcaattctt-cttgctttctttctttcttgtc-tgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT
                                |  ||  ||  ||     |          |    | || | | |  ||  ||     | |||||        |||  || |  |||| ||||||||| ||||||||||| |||||||||||||| ||||| || ||||||||||| || ||||| || |||||||| |||||||| || || |||
--------------------------------gtaatgtttacttctacactgttacaacatgaattcaagcgctagatttgatagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT

upper sequence: Vv07s0031g03090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G013079_T01 (Zea mays), 3'ss of exon 8
gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatgg----tgaatctcaattttcaattcttcttgctttctttctttcttgtc-tgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT
                    ||||  || |  |      |  |    ||| |     ||| |   |    |  ||   | | || | |    | |||||      | |||  || |  |||| ||| ||||| ||||||||||| |||||||||||||| ||||| || ||||| ||||| || ||||| || |||||||| |||||||| || || |||
--------------------atgacaagtaatgtttgtttctacactgttacaaacatgagttcagacactagattgaagtattaattgaggcctgcttgaaccttctctattcatatagGAATGTTAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAATACTTCCGTCATGCCACGGGGCAGATATATGCCATTTCGAAAGAT

upper sequence: Vv07s0031g03090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G77810.2 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatggtgaatctcaattttcaattcttcttgctttctttctttc--ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT
                         |  |       | ||||| |          |||  || ||||    ||     ||  ||| || |||  ||  ||  ||    ||| | |||||| || ||||| ||||||||||| || ||||||||||||||||| || || || |||||||| ||||| || || ||||| ||||||||||| ||||||
-------------------------gtaattccatttgcttgagtcaagcttaaagttt-ctctggttttactgg---ttagattattgttgagttagtttattgaactgttt-cagGACAGTAAAGTACCATGAACCTGAGTATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGAT

upper sequence: Vv07s0031g03090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G77810.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatggtgaatctcaattttcaattcttcttgctttctttctttc--ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT
                         |  |       | ||||| |          |||  || ||||    ||     ||  ||| || |||  ||  ||  ||    ||| | |||||| || ||||| ||||||||||| || ||||||||||||||||| || || || |||||||| ||||| || || |||||                   
-------------------------gtaattccatttgcttgagtcaagcttaaagttt-ctctggttttactgg---ttagattattgttgagttagTTTATTGAACTGTTT-CAGGACAGTAAAGTACCATGAACCTGAGTATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATC------------------

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|32248254|gb|CD714073.1|CD714073
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|110720016|gb|EE095627.1|EE095627
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAAGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|30125799|gb|CB911138.1|CB911138
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|32267576|gb|CD716539.1|CD716539
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|351036166|gb|FQ464011.1|FQ464011
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAAGGGGA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGA-GGGGA
EST: gi|37187390|gb|CF606743.1|CF606743
EST:     CCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|110719628|gb|EE094920.1|EE094920
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|30326867|gb|CD010129.1|CD010129
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|30135395|gb|CB920733.1|CB920733
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|110413181|gb|EC978958.1|EC978958
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|32271216|gb|CD720375.1|CD720375
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|110361463|gb|EC924936.1|EC924936
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|30127312|gb|CB912651.1|CB912651
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|351044383|gb|FQ452935.1|FQ452935
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAATTTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|32248260|gb|CD714079.1|CD714079
EST:     CCCAGAGTGTACATAGGATGTATGANATCTGGACCCGTTCTTTCTCANAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
EST: gi|32268821|gb|CD717980.1|CD717980
EST:     CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAA                         GACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA
genomic: CCCAGAGTGTACATAGGATGTATGAAATCTGGACCCGTTCTTTCTCAAAAgtaagtccta ... ttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatggtgaatctcaattttcaattcttcttgctttctttctttcttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT
          tctcaattttcaattc  CT-rich tract
              aattttcaattctt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatggtgaatctcaattttcaattcttcttgctttctttctttcttgtctgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT