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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctctctcttatgtttctttattccctgtagtgttgttgtgttttgatgatgttgatgactcttgtagaagtgctttgtgtttcatctagctctattcttaattccagATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAGTTCTAAATACCGGGACTTGACTGCCCATTCACAACTTGCGATTACA

Basic information

species Arabidopsis thaliana
transcript AT1G60490.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 2
gtttctctctcttatgtttctttattccctgtagtgttgttgtgttttgatgatgttgatgactcttgtagaagtgctttgtgtttcatctagctctattcttaattccagATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAGTTCTAAATACCGGGACTTGACTGCCCATTCACAACTTGCGATTACA
|  | | | | ||  ||     |||  |   |  ||||  ||||  |||   || |||||      | | |   |  ||  | |||  |  |  | | || ||    |||| ||| || ||||||||||| |||| |||||||| |||||||| ||| | ||| | ||||| || ||| | ||||| || |||||||||||  | |||
gcatgtttttgttgagtac---tatatctatttatgtttatgtggcttgcaaattttgata-----tattggcatatttgatttttattggaattgtttttttg---ccagGTTGGAATCTACAGGACCATCATATTGCTGGAATGAACTCATTACTTTGAGTACAAAATATCGCGACCTAACTGCTCACTCACAACTTGCATTAACA
















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|86068049|gb|DR363806.1|DR363806
EST:     TGTGCATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAG                         ATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAG
genomic: TGTGCATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAGgtttctctct ... ttaattccagATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAG
EST: gi|116469040|gb|EG511632.1|EG511632
EST:     TGTGCATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAG                         ATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAG
genomic: TGTGCATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAGgtttctctct ... ttaattccagATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAG
EST: gi|86068050|gb|DR363807.1|DR363807
EST:     TGTGCATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAG                         ATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAG
genomic: TGTGCATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAGgtttctctct ... ttaattccagATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAG
EST: gi|164016778|gb|ES213032.1|ES213032
EST:     GTGCAATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAG                         ATTGAAAACTAC
genomic: GTGC-ATTGTACATTGATGGAGCTCCTTTTGGCCTTCCCATGAGAACAAGgtttctctct ... ttaattccagATTGAAAACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgactcttgtagaagtgctttgtgtttcatctagctctattcttaattccagATTGAAAACTACAGGACCACCATACTGCTGGAACGAACTCATCACTCTCAGTTCTAAATACCGGGACTTGACTGCCCATTCACAACTTGCGATTACA
                                           tcttaat  putative branch site (score: 3)
                                     ctctattctt  CT-rich tract
                                        tattcttaatt  TA-rich tract