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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG

Basic information

species Vitis vinifera
transcript Vv19s0015g01950.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os08g39070.1 (Oryza sativa), 3'ss of exon 5
gtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatc-ttgtgaatggctttacaactgtggctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG
                                                             | |    ||||| |  |  |  | |   | |    |||| ||  ||  || |  ||   || | ||  || |        | | |      | ||| |||| ||||||||||| || || || || ||||| ||||||||||||||||| ||||||||  |||||||| | ||||| |||||  || | ||||| ||||
------------------------------------------------------------gtgag--ggttcttctta--tcatcagtttatgtcttacagatattgagttgtactacccaatatattgtttttggaaaaatgatactgacagatatatttgagcagTGGCTGCTCATCTGACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAATATCTTGTTTCCATGCAGAAAG

upper sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G028089_T01 (Zea mays), 3'ss of exon 5
gtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG
           |   ||   |  |||   | | | ||||  | ||  |||   |    | |     |   |   | |  | |||   | || |||| | ||| |    ||| |   | | |     | || || || |   |  |      | |   |||||||||||||||| || || || || ||||| ||||||||||||||||| ||||||||  |||||||| | ||||| |||||  |||| ||||||||||
----------gtaagcattctactttgaagccctctctcaaaacaaatttatggg---tcagtgggtgtcttccccgtggctttg--ctttctcaacaaatagt-catattatccgaggtat----ttttctggatagaaatgtactaaacgatgcttttgtgcagTGGCTGCTCATCTTACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAGTATCTTGTTGCCATGCAAAAAG

upper sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G080652_T01 (Zea mays), 3'ss of exon 5
gtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG
                       |      | |  | |     ||| |    ||| |    |      ||  | |    |  |||  | || |||| |  |||||  |||  | |       | |   || || |  |  ||  |    | | |   || ||||||||||||| || || || || ||||| ||||||||||||||||| ||||||||  |||||||| | ||||| |||||  |||| ||||||||||
----------------------gtaagagttataatttgaagacatctcataagacagccctgggggtgtcttccctgtggctttg-ctttctcaacat-tattagtcatactgtctgaggtata--tttctggacagaattgtactaatcgatgatttcgtgcagTGGCTGCTCATCTTACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAGTATCTCGTTGCCATGCAAAAAG

upper sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G12890.1 (Glycine max), 3'ss of exon 5
gtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtg-gctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG
                                                           | |  | |  | | |   ||||   |   | |        |   | ||  ||||||||         | |  || |||  | ||  | |    | | | ||  |||||||||||| ||||| || || ||||| ||||||||||| |||||  ||||||||||    || || ||||| ||||| ||||| ||||||||||
-----------------------------------------------------------tgttgattgatgc-atgtaagtgactccacctagtggggtaaggtgtgggtttttttagt-------tgtattgcatgtatctaatattccatgttttcttaatgcagTGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAG

upper sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G26430.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctac-agaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG
                                                                   || | ||  |  | ||  |||   |   |||   |  | | | ||||  |  | |   ||| ||  |  ||  |   | | |          ||||||||||||||| || || || || ||||||||||||||||||||||| |||||||||||| | || ||  | ||  || |  | |||||||| ||||
----------------------------------------------------------------gtaagctttattatcacttcatatttatcataatctgttcttt-ctttttcatctgcatggaatttta-ggttgattcctcgatt----------ttgtgcagTGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAG

upper sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G56280.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG
                                                                            |      ||||     | ||||||||| || |     ||   ||      ||||     ||  |||       |     |   | |||||||||||| || || || || ||||||||||||||||||||||| |||||||||||| | || ||| | ||  ||||   ||| ||||| ||||
----------------------------------------------------------------------------gtgagccttatgtcact-aatacatatcatactccacttcctgag-----tcttac---tgtttttggctgattattcgttcatatgcagTGGCTGCTCATCTTACTGGTATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTTTACCAAAATCTTGCTGCAATGCAGAAAG

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|110713432|gb|EE089350.1|EE089350
EST:     TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAAT                         TGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA
genomic: TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAATgtaagccctt ... gtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA
EST: gi|110363635|gb|EC927237.1|EC927237
EST:     TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAAT                         TGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA
genomic: TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAATgtaagccctt ... gtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA
EST: gi|110368023|gb|EC931983.1|EC931983
EST:     TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAAT                         TGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA
genomic: TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAATgtaagccctt ... gtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA
EST: gi|110684768|gb|EE062427.1|EE062427
EST:     TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAAT                         TGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA
genomic: TCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAATgtaagccctt ... gtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcagTGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAG
     aagaaaaaaatctt  TA-rich tract