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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcctcccttatctatcttgcctcaatttgcgcgcattcttaaactaatcatgctttctgtgttttactttgccagACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTG

Basic information

species Arabidopsis thaliana
transcript AT1G15290.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA08G22850.1 (Glycine max), 3'ss of exon 18
----------gttcctcccttatctatcttgcctcaatttgcgcgcattcttaaactaatcatgctttctgtgttttac-tttgccagACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTG
           |  | | |        | | || |  | | | | |||   |  |  |||  |   | | || |||| | | |   ||||||| ||||||||||| || |||||  | ||||| || || || || |||  |||  |||||||||||||||| |||||||||||  ||||||||   |
gtcttactttctctccctccccctccccctccccctttcttcccccatggatggaacaattctttatacagtattttccatgttatagACTGCCGCAAGCTATCACGCCATAGCTATAGCTCTTTCATTGATAGATGCATTTTCTCTGAGTGTGCAACATGAGCAAACTACACTAAAGATACTTCAAG

upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA07G03250.1 (Glycine max), 3'ss of exon 20
----------gttcctcccttatctatcttgcctcaatttgcgcgcattcttaaactaatcatgctttctgtgttttac-tttgccagACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTG
           |  |||||||          || |  | | | | |||   |  |  | |  |   | | || |||| | | |   ||||||| ||||||||||| || |||||  | ||||| || || ||||| |||  |||  ||||| |||||||||| |||||||||||  ||||||||   |
gtctctctctctctctccctttctccctccccccctctctccccccatggatggaacagtgctttatacagtattttccatgttatagACTGCCGCAAGCTATCACGCCATAGCTATAGCTCTTTCATTGATGGATGCATTTTCTCTGAGTATGCAACATGAGCAAACTACACTAAAGATACTTCAAG

upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 19
----------------gttcctccctta---tctatcttgcctcaatttgcgcgcattcttaaactaatcatgctttctgtgttttactttgccagACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTG
                 | |||| || |   ||| ||||     || ||    | |||   |    |||  ||  ||     || |  |    |||||||| || ||||||||||| |||||  | || || ||| | ||||||||| ||||  | |||||||||||||| || |||||||| ||||||||    |
gtttttctctctctccatccctctctcactctctctcttagtgtaagtttgatgtattgggagctaaattttgtatttgaacttctcatcctgcagACTGCTGCCAGCTATCATGCCATAGCCATAGCACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAG

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|116431561|gb|EG474153.1|EG474153
EST:     ATGAAGCTCTAAAGAGCAATAAAAGATTGCTAGGAGCTGACCATATTCAG                         ACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCA
genomic: ATGAAGCTCTAAAGAGCAATAAAAGATTGCTAGGAGCTGACCATATTCAGgttcctccct ... actttgccagACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaatttgcgcgcattcttaaactaatcatgctttctgtgttttactttgccagACTGCGGCAAGCTATCATGCAATAGCAGTGGCTCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTG
                     aactaat  putative branch site (score: 2)
                                         ttttacttt  putative PPT
              attcttaaactaat  TA-rich tract