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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaagcctttttctagtgtttgcagattttccttttatgaaattgttccagaaaggatcagcttaaatttcaaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 14
gta-tgcaagcctttttctagtgtttgcagattttccttttatgaaattgttccagaaaggatcagcttaaattt-caaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
||| || |    ||   ||| | |  ||     |    |        ||||||         |    ||  |||| |||| |  || |   ||| |||  |      || | ||||       ||||||||||| || |||||||| |||||||| ||||||||||| || |||||  ||||||  ||||| |||||||||||||| ||||||
gtaatgtattggttaagctattttgggctagggtgaaatactctgctttgttctgtgggttgttgatttttatttgcaaaattaatta---tttactgtat------atctcttttac-----cagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 14
gtatgcaagcctttttctagtgtttgcagattttccttttatgaaat--tgttccagaaaggatcagct-taaatttcaaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
        |   |||  | ||      |  || | ||    ||||||  | | |         |  | | |  ||||  | ||| | ||  | ||  | | || |   || | ||||       ||||||||||| || |||||||| |||||||| ||||||||||| || |||||  ||||||  ||||| |||||||||||||| ||||||
--------gtaatttattggttaagctattttgtgctagggtgaaatattctgctttgttctgtgggttgttgatttttatttgcaaaatttattatttactgta--tatctcttttac-----cagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
gtatgcaagcctttttctagtgtttgcagattttccttttatgaaattgttccagaaaggatcagcttaaatttcaaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
        |   ||   || | |  ||| | ||    || |||  |    | ||           | |   | |   ||   | |||   || ||   | |    |||| | | | |    ||||||||||| || |||||  | |||||||| ||||||||||||||||||||  | || |  || || || ||||||||||| ||||||
--------gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtca-atttgtatcttgac--cagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 14
--------------------------------------------------------gtatgcaagcctttttctagtgtttgcagattttccttttatga-aattgttccagaaaggatcagcttaaattt-caaattggataaaattttcctgagtggaggcatttat-ttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
                                                         | || |   |   || | || |  |    | ||   | | ||  || ||||   |    || |||  ||  |     || | || ||  | | | |||  |    |||||   |||||  |||||||| ||||| ||||||||  |||||||||||||||||||||||||| | ||  ||||||  || || |||||||||||||||||||||
gtgtgagagaaacctctgcagttcatacaatttttttatttgaacctgaaccatttctttgtagctccccttattgtctgcgtccttgttatatctgtggtaactgtttttgttttgaacagtatatgtacattaagttgacaatgtctgc-tgacagttaccattttcattttgatttgcagGGCGCTGTTAATTTTGCATTAATGATGTCTCAAATGGAGGGAGGTAGCCCAGTTGATTACAACACAATAACTGATCTCTTTCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 14
---------------------------gtatgcaagcctttttctagtgtttgcagattttccttttatgaaattgttccagaaaggatcagcttaaatttcaaattggataaaattttc--ctgagtggaggcatttat-ttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
                            |||  ||   ||||  | |    || |   |||| || ||       | |||    |   || |  |   | | | ||  | | | | | ||  ||||  |    |||||   |||||  |||||||| ||||| ||||||||  |||||||||||||||||||||||||| | ||  ||||||  || || |||||||||||||||||||||
gtgtgagagaaacctctgcagtttatattatataatttttttagttgaacctgaaccatttctttgta-------gctccccttattctctgtctccttgttatatctgttgacaatgtctgctgacagttaccattttcattttgatttgcagGGCGCTGTTAATTTTGCATTAATGATGTCTCAAATGGAGGGAGGTAGCCCAGTTGATTACAACACAATAACTGATCTCTTTCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 14
-------------------------------------------------------gtatgcaagcctttttc-tagt--gtttgcagattttcc-ttttatgaaattg---ttccagaaaggatcagcttaaatttc---aaattgg-----ataaaattttcctgagtggaggcatttatt---tttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
                                                       || ||| |  || ||   || |   ||  || ||| |   |||| ||| || |   ||| | ||    |     | |||||    |||||        |||||  |   | |         ||| ||   ||||| ||  |||| ||||| ||||||||  |||||||||| ||||||||||||||||| ||  ||||||  || || ||||||||||| |||||||||
gtatgagagaatcctctgtagttcatattaactatttctttgtatttctcccattgtctgccacactgttggataattgattatcaaattatatattttctgacatggaaattctataactatttcatctcaatttgcagaaattaatagttgtaaaaactaattcaacaactttcttttttcattttggtttctagGGTGCTGTTAATTTTGCATTAATGATGTCGCAAATGGAGGGAGGTTGCCCAGTTGATTACAACACCATAACTGATCTGTTTCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 14
gtatgcaagcctttttctagtgtttgcagattttccttttatgaaattgttccagaaaggatcagcttaaatttcaaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
                        || | ||| |     |||    || ||         ||  ||  |||||   | ||| ||||| |  | |            |||  |||||| ||  |||| ||||| ||||||||  |||||||||| ||||||||||||||||| ||  ||||||  || || ||||||||||| |||||||||
---------------------acatggaaattctataactatt---tttttttcatctcaatttgcagaaattaatagttgtataaactaattcaagaactttctttttcattttggtttctagGGTGCTGTTAATTTTGCATTAATGATGTCGCAAATGGAGGGAGGTTGCCCAGTTGATTACAACACCATAACTGATCTGTTTCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 14
---------------------------------------gtatgcaagcctttttct-agtgtttgcagattttcctt--------ttatga---aattg--ttccagaaaggatcagcttaaattt---caaattggataaaattttcctgagtgga------------ggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
                                        |||| |||   ||| || | | | ||  |  |   |          ||||||   || |   ||   |||    |   | | |  ||    | | || | ||  |||| |  |  | |            | | |||| ||||   ||||||||||| |||||||||||  ||||||||||||||||||| ||||||| |||  |||| |  || || || |||||||| |||||||||
gttagtgtggtgcactcttgatacttgcaacatactaaactatgaaaggactttactgaatatatgtggcgtaagcactggaagagttatgaatcaactaacttgttgaataatttgacctgatgttatatagaatgaagaatctttttcccaccgtattaatatcaatagtcttttaatttttatttgcagGGAGCAGTAAATTTTGCATTAATGATGTCTCAAATGGAAGGAGGTTCTCCAGTTGACTACAACACCATCACTGATCTTTTTCTTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 14
gtatgcaagcctttttctagtgtttgcagattttccttttatgaaattgttccagaaaggatcagcttaaatttcaaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
                ||  |||| |   ||    |   || |   |||  |   ||| |||||       |||     ||   |  || ||| |           |||   |     ||||||||||| |||||||||||  |||||||||| |||||||| |||||||||||  |||| |  || || || |||||||| || ||||||
--------------gcctgctgtt-gtttatcaagcaactaagcttttgccctgtaaaagatcaatagtcttttttttctgctaattatcttctt---------ttttttcctgctaattgcagGGAGCAGTAAATTTTGCTTTAATGATGTCCCAAATGGAAGGAGGTTGTCCAGTTGACTACAACACTATCACTGATCTTTTCCTTCAG

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|122689653|gb|EC942290.1|EC942290
EST:     CTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCAGATCCTCAG                         GGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCC
genomic: CTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCAGATCCTCAGgtatgcaagc ... tgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttcaaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG
                                     tttattttt  CT-rich tract
      aaattggataaaattt  TA-rich tract