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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctacttctcctattttgttagatgttactttgtatggtcttaccattgattcatatgtcaacaacctccttacttttattatctatttttttcacgtttactgcttgtcgagcatgcttctaaatgctacatggtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCATATAGTAGTTCAAAAGGCTCCATTCGTTTGATTGATATGCGTCAATCAGC

Basic information

species Arabidopsis thaliana
transcript AT1G17720.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 7
gtatgctacttctcctattttgttagatgttactttgtatggtcttaccattgattcatatgtcaacaacctccttac--ttttattatctatttttttcacgtttactgcttgtcgagcatgcttctaaatgctacatggtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCATATAGTAGTTCAAAAGGCTCCATTCGTTTGATTGATATGCGTCAATCAGC
                                                     | | |      || ||  | ||| |  |||| ||  ||  |   ||| | |||      | |||     || |  |      | ||  |   |||||||||||| |||||||| || ||||| ||||  |||||||||| | | |||||||| |||||||| || || |||||| |  ||||  |||| ||||||||
-------------------------------------------------gcaaagtgaaggaagaataatttgctttctatttttttgcctgctcagttc-cattttaaaagtatcggttgagccttgaccctagatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACGTTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGACAATCAGC

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
gtatgctacttctcctattttgttagatgttactttgtatggtcttaccattgattcatatgtcaacaacctccttacttttattatctatttttttcacgtttactgcttgtcgagcatgcttctaaatgctacatggtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCATATAGTAGTTCAAAAGGCTCCATTCGTTTGATTGATATGCGTCAATCAGC
                                   ||| | |||||     ||  |||  | |||  ||         ||| | ||| | ||||||  |  || |      || |||| |    |  |    || ||  |   |||||||||||| |||||||| || ||||| ||||  ||||||||||   | |||||||| |||||||| || || |||||| |  ||||  |||| || |||||
---------------------------------gctgt-tagtcttg----tggatcaggtatcataaattgaacctttttaaatatattttttttgtagcttca------gttgagctttgacccta----tatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 7
gtatgctacttctcctattttgttagatgttactttgtatggtcttaccattgattcatatgtcaacaacctccttacttttattatctatttttttcacgtttactgcttgtcgagcatgcttctaaatgctacatggtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCATATAGTAGTTCAAAAGGCTCCATTCGTTTGATTGATATGCGTCAATCAGC
                                     |||  || |  |  | |||||| |||   |    | ||   || || | | || |  |    | ||   ||    | |  | |   |   ||| ||      ||| ||||||||| || |||||||| |||||||| |||| ||||||||| ||| | ||||||||||||||||||||||| || ||  | | |||| |||| || |||||
-----------------------------------aatatt-tcctgtctatcattcatttgtt--ctgggtgct--attctactgtttaatgatgctgcattc-ttgagcattggacttatattccaattct------tct-tgcagAGGTGATAACATCAGCGGAGTTTCACCCTACCCATTGTAACATGTTAGCATATAGTAGTTCAAAAGGCTCAATCCGCCTTAATGATTTGCGACAGTCAGC

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|116478423|gb|EG521015.1|EG521015
EST:     GAGTTTCAATATTGTTGATGTTAAGCCCACAAACATGGAGGACTTAACTG                         AGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCAT
genomic: GAGTTTCAATATTGTTGATGTTAAGCCCACAAACATGGAGGACTTAACTGgtatgctact ... gtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCAT
EST: gi|301502468|gb|HO208008.1|HO208008
EST:     GAGTTTCAATATTGTTGATGTTAAGCCCACAAACATGGAGGACTTAACTG                         AGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCAT
genomic: GAGTTTCAATATTGTTGATGTTAAGCCCACAAACATGGAGGACTTAACTGgtatgctact ... gtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcacgtttactgcttgtcgagcatgcttctaaatgctacatggtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCATATAGTAGTTCAAAAGGCTCCATTCGTTTGATTGATATGCGTCAATCAGC
                             ttctaaa  putative branch site (score: 2)
                             ttctaaat  TA-rich tract