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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatcttctaatggctgcttagttattggaaatatacctcagcatttttagattctgatcagaacattatgcatgtttattcagCTTTAAAATCTTCAAGGTTATTAGAAGATATGGCTTCGAGGGGGATTAAATATGTGGATTGCTATGGTGTTGACAATGTTCTG

Basic information

species Arabidopsis thaliana
transcript AT2G35020.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G35020.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------------gtatatatcttctaatggctgcttagttattggaaatatacctcagcatttttag-attctgatcagaacattatgcatgtttattcagCTTTAAAATCTTCAAGGTTATTAGAAGATATGGCTTCGAGGGGGATTAAATATGTGGATTGCTATGGTGTTGACAATGTTCTG
                                        | ||  || ||  ||     |   |  |||   ||  |  |  |  |  | |  | | | |   || | |  |   |||| | |||||||||||||||||||| ||| | |||||||||||  | || ||  | || ||  | ||||||||||| ||||||||||  |||
gtaatatctgttttactttaatttaaatctatagcgatacagatcactactggtgaactttatctccttgtttatgcatttaggagtgctcattagtttaaattgatcctact--ttgttgaatcagCTTTAAAATCTTCAAGATTACTTGAAGATATGGCCACAAGAGGAGTCAAGTACTTAGATTGCTATGGAGTTGACAATGCACTG
















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|47828124|gb|CK117808.1|CK117808
EST:     CTATCCAAGGCGCCGGATGGGAACGGGGGAGTTTATACAG                         CTTTAAAATCTTCAAGGTTATTAGAAGATATGGCTTCGAGGGGGATTAAAT
genomic: CTATCCAAGGCGCCGGATGGGAACGGGGGAGTTTATACAGgtatatatct ... gtttattcagCTTTAAAATCTTCAAGGTTATTAGAAGATATGGCTTCGAGGGGGATTAAAT
EST: gi|116428980|gb|EG471572.1|EG471572
EST:     CTATCCAAGGCGCCGGATGGGAACGGGGGAGTTTATACAG                         CTTTAAAATCTTCAAGGTTATTAGAAGATATGGCTTCGAGGGGGATTAAAT
genomic: CTATCCAAGGCGCCGGATGGGAACGGGGGAGTTTATACAGgtatatatct ... gtttattcagCTTTAAAATCTTCAAGGTTATTAGAAGATATGGCTTCGAGGGGGATTAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatatacctcagcatttttagattctgatcagaacattatgcatgtttattcagCTTTAAAATCTTCAAGGTTATTAGAAGATATGGCTTCGAGGGGGATTAAATATGTGGATTGCTATGGTGTTGACAATGTTCTG
                       ttctgat  putative branch site (score: 3)
                                              tttattc  putative PPT
              atttttagatt  TA-rich tract