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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgctatagatttttgctgtctctgttattttatttcctttcactagatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC

Basic information

species Vitis vinifera
transcript Vv08s0007g02270.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G012284_T01 (Zea mays), 3'ss of exon 7
gtactgctatagatttttgctgtctctgttattttatttcctttcactagatgatcttattctgagatgtatcttgt-acttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
|||   ||   ||| ||  |  |   ||| |  ||||     |   |   |  |  | |       ||  ||||| | | || |    |||||||  | || ||||| || || ||||||||||||||||| |||||  |||| |||||||| ||||  |||||||||||| | |   ||||||| || ||
gtat--cttctgatctt--ccattcttgtcaacttatgctgctgagccgaacaaattca-------attaatcttctgatttatgtaccagGTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTGCAGTGATTGCTGGGGAGATGATGCTTGGATTGAAGCTAGTTTTTATCAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM5G871262_T02 (Zea mays), 3'ss of exon 9
gtactgctatagatttttgctgtctctgttattttatttcctttcactagatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
|||   ||   || || |  | |  | ||  | | |  |  |    || |||||    | ||  |    | |  |  | || |    |||||||| | || ||||| || || ||||||||||||||||| || ||  |||| |||||||| ||||  |||||||||||  | | | | |||||||| ||
gtat--cttctgaattctcatcttccagtcttgtcaacttatggtgct-gatgagaacaatccaattaatcttcta-atttgtgtaccagGTCTCCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTCCTTATTGCAGTGATTGCTGGGGAGATGATGCTTGGTTTGAAACTTGTTTTCATCAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G43020.1 (Glycine max), 3'ss of exon 9
--------------------------------gtactgctatagatttttgctg-tctctgttattttatttcct-ttcactagatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
                                 | | | |||  ||  |   || |   |  |||| ||| |  | |||  |  || |   ||   ||| || | |  | |  |  ||| ||||||||  | || ||||| ||||||||||| ||||||||||||||||| ||||| |||||||| || || |||||||||||||| ||| |||||||||||||
gtatgttggaaaactcaggctatttttctttccttcagttatgtataataattgatacattatattatatgtaatattctttcaattaatctaga-tgatatatgtaatttgttctttcatcagGTCTTCTTGGCACTGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTGCTGTGATTGCTGGTGCCATGATGCTTGGACTGAGACTAGTTTTCATTAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 8
--------------------------gtactgctatagatttttgctgtctctgttattttatttcc---tttcact-agatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
                              | ||  || | | |    |   || ||  |||| |      |||| | || | ||||   |   | |||||  |||| |||  || ||||||||  | || ||||| ||||||||||| ||||||||||||||||| ||||| |||||||| || || |||||||||||||| ||| |||||||||||||
gtatgttggaaagctcaggctatttttctttccttcagttatgtataataattgatacattatatgtaatattcattcagttaatctagatgatatatgtaatttgttctt--tcatcagGTCTTCTTGGCACTGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTGCTGTGATTGCTGGTGCCATGATGCTTGGACTGAGACTAGTTTTCATTAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 9
----------------------------------gtactgctatagatttttgctgtctctgttattttatttcct----ttcactagatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
                                    | | | |||   |   |      | |  ||| ||| |  |    |||| |   | ||  | |  |||  | |   || |||||  || ||||||||  ||||||| || ||||||||||| ||||||||||||||||| ||||| |||||||| || || ||||||||||| || ||| |||||||||||||
gtatgttggattactcttacctttagtgattattccattaccataagctagagagtatacagacattatatattttaattttcattcagttattct-tcatgatgtctgcattctactt--tcatcagGTCTTCTGGGTACAGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTGCTGTGATTGCTGGAGCCATGATGCTTGGGCTGAGACTAGTTTTCATTAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G30400.1 (Glycine max), 3'ss of exon 9
----------------------------------gtactgctatagatttttgctgtctctgttattttatttcctttcactagatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
                                    | | | |||   | | |        |  ||| ||| |  | |    |     |  |  |    |||||||    |  |  ||| ||||||||  ||||||| || ||||||||||| ||||||||||||||||| ||||| |||||||| || || ||||||||||| || ||| |||||||||||||
gtatgttggaatactcttacctttagtgattattccattaccataagctatagagtatagagacattatatattttattttcattcagtaattcttcatgatgtatgcattcttctttcatcagGTCTTCTGGGTACAGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTGCTGTGATTGCCGGAGCCATGATGCTTGGGCTGAGACTAGTTTTCATTAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 9
--------------------------gtactgctatagatttttgctgtctctgttattttatttcc---tttcact-agatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
                              | ||  || | | |    |   || ||  |||| |      |||| | || | ||||   |   | ||| |  |||| |||  || ||||||||  | || ||||| ||||||||||| ||||||||||||||||| ||||| |||||||| || || |||||||||||||| ||| |||| ||||||||
gtatgttggaaggctcaggctatttttctttccttcagttatgtataataattgatacattatatgtaatattcattcagttaatctagatgatatatgcaatttgttctt--tcatcagGTCTTCTTGGCACTGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTGCTGTGATTGCTGGTGCCATGATGCTTGGACTGAGACTAGTATTCATTAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 9
gtactgctatagattt----ttgctgtc-tctgttattttatttcctt-tcactagatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
|||     |||  |||    ||| | || | | | |  ||  ||| || |  |||  |||    || |||  | || |   | |  ||| |   |||||| || || ||||| || ||||| |||||||| ||||||||||| ||||| || || || |||||||||||||| ||  | |   | || ||||||||
gtaagttcatacttttgtccttgttatcctgtataaggtttcttctttgtttctaactgactccatgctggtacgtgt---ggaaatctcc---agGTCTTTTAGGCACTGCTGCCTTTGCTTTCTTCTGTTTCTACCTTCTACTTGCTGTTATCGCTGGGGCAATGATGCTGGGTTTGAAGCTGGTCTTCATTAC

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 3'ss of exon 9
---gtactgctatagatttttgctgt-ctctgttattttatttcctttcactagatgatcttattctg-------agatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
          | |    | ||| | | ||    |||    | | | ||   |   ||| ||   ||||       | ||||  | | | ||| |||   ||||||  | || || || || ||||| |||||||| ||||| || || ||||| || ||||| |||||||||||||||||  | |   | || ||||||||
gtaacttcattttctgatcttgttatgctactctataccttgttccttttgtgtctgacctggctctgtgttcatacatgtgacattttcttgttcactagGTCTTCTTGGCACAGCTGCCTTTGCTTTCTTCTGTTTCTATCTCCTACTTGCTGTTATTGCTGGGGCAATGATGCTTGGTTTGAAGCTGGTCTTCATTAC

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|71873418|gb|DT022473.1|DT022473
EST:     TCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGG                         GTCTTTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTG
genomic: TCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGGgtactgctat ... tcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTG
EST: gi|30254542|gb|CB971287.1|CB971287
EST:     TCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGG                         GTCTTTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTG
genomic: TCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGGgtactgctat ... tcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTG
EST: gi|294965055|gb|GW838858.1|GW838858
EST:     TCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGG                         GTCTTTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCCTG
genomic: TCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGGgtactgctat ... tcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTG
EST: gi|110361016|gb|EC924466.1|EC924466
EST:     TCTGTCTCCTTTCTTAAATGAGGTTTTTATCAAGCTAGATGATGTCTGGG                         GTCTTTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTG
genomic: TCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGGgtactgctat ... tcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcctttcactagatgatcttattctgagatgtatcttgtacttcttcgtcagGTCTCTTGGGTACTGCAGCATTTGCATTCTTCTGCTTCTACCTTCTGCTTGCGGTGATTGCAGGGGCAATGATGCTTGGACTTAGATTAGTTTTCATTAC
                                    tcttgtacttcttc  CT-rich tract
                  atcttatt  TA-rich tract