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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaattgttatcttattgtcttggcttcttcttaatatgtttaagatgtcaaataccatcagaactgtttcatattttttagaagcggtttcttatgtcttctccacccctttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACTTTATCGTGGCCAGACAGAATTTACTGCTCTGAGATAACTT

Basic information

species Vitis vinifera
transcript Vv17s0000g08390.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 9
gttaattgttatcttattgtcttggcttcttcttaatatgtttaagatgtcaaataccatcagaactgtttcatattttttagaagcggtttcttatgtcttctccacccctttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACTTTATCGTGGCCAGACAGAATTTACTGCTCTGAGATAACTT
               ||| | |  | |  || |   ||  |  |  ||     ||   ||     || || |||||  ||||  |  |  |   ||    |  |   |  || | |  ||||||||| |||||||| || || ||||| ||||| ||||||||  | |||||| | || || |||||||||||||| ||||| || ||||| ||| | || |
---------------attatttcaggtcgttat-ggtacatgcagaattgtttatgtaat---ggct-ttacatatggtttaatattg--tctgtagcattcatgttcttctattttcccagGATTCATCTGTCCTAGCTCAATTGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGT

upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G09740.1 (Glycine max), 3'ss of exon 9
gttaattgttatcttattgtcttggcttcttcttaatatgtttaagatgtcaaataccatcagaactgtttcat--attttttagaagcggtttcttatgtcttctccacccctttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACTTTATCGTGGCCAGACAGAATTTACTGCTCTGAGATAACTT
                         ||| |   |||||     |||     | |    |  ||||     ||||  |   ||    |    ||   ||   ||     |   |||  | |||||||||| ||||| || |||||||||||||||||||||||||||||||||||||||||||| ||||| ||||| ||||| ||||| || |||||    ||||
-----------------------aacttgtgtataataaagaaaagggtatagaagaaagaagaaaaagatcattaaccattgtttaatcattatctaatactaaattatttcttgat-tccagGATTCATCTGTTCTTGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACATTATCATGGCCTGACAGGATTTATTGTTCTGAAGACACTT

upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 9
gttaattgttatcttattgtcttggcttcttcttaatatgtttaagatgtcaaataccatcagaactgtttcat---attttttagaagcggtttcttatgtcttctccacccctttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACTTTATCGTGGCCAGACAGAATTTACTGCTCTGAGATAACTT
                         ||| |   ||||||    | | | ||||| |  |  ||||   | ||||   |  || |  |     ||   ||   ||    ||   |||  | |||||||||| ||||| || ||||| |||||||||||||||||||||||||||||||||||||| ||||| ||||| ||||| ||||| || |||||  | ||||
-----------------------aacttgtgtataatatagaaagggtatcaaagaa-aggagaaaaatatcattaaacattgttaatcatattatctaatactaaatcatttcttgat-tccagGATTCATCTGTTCTTGCACAATTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACATTATCATGGCCTGACAGGATTTATTGTTCTGAAGTCACTT

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|156738151|gb|EV242272.1|EV242272
EST:     AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAG                         GATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
genomic: AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAGgttaattgtt ... ttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
EST: gi|110373236|gb|EC937455.1|EC937455
EST:     TTCATCCACAATCTATCATACATTCTATGGTCGAAACACAG                         GATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
genomic: TTCATCCACAATCTATCATACATTCTATGGTCGAAACACAGgttaattgtt ... ttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
EST: gi|18458037|gb|BM436315.1|BM436315
EST:     AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAG                         GATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
genomic: AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAGgttaattgtt ... ttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
EST: gi|110707087|gb|EE083191.1|EE083191
EST:     AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAG                         GATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
genomic: AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAGgttaattgtt ... ttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
EST: gi|110426317|gb|EC992722.1|EC992722
EST:     AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAG                         GATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
genomic: AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAGgttaattgtt ... ttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
EST: gi|110392719|gb|EC957016.1|EC957016
EST:     AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAG                         GATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
genomic: AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAGgttaattgtt ... ttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
EST: gi|110390668|gb|EC955591.1|EC955591
EST:     AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAG                         GATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC
genomic: AGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAACACAGgttaattgtt ... ttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcatattttttagaagcggtttcttatgtcttctccacccctttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACTTTATCGTGGCCAGACAGAATTTACTGCTCTGAGATAACTT
                   cggtttcttatgtctt  CT-rich tract
     atattttttagaa  TA-rich tract