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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgcttcataactatagtatccatatattacctttgatttgatgagtcttcttctccaagtcttttggttttttaattcttgatgatagaaaaagttagtatcatcttctcatatttttgctactacagAGGATGACACAAGCGTACCAGTGGAGATCAAAGTTCCAATTCTGATAGCTTTCCACCGTCATATATACGATGGTGACTGGCATTTTTCAT

Basic information

species Arabidopsis thaliana
transcript AT4G34650.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34650.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv03s0038g00450.t01 (Vitis vinifera), 3'ss of exon 2
gttagtgcttcataactatagtatccatatattacctttgatttgatgagtcttcttctccaagtcttttggttttttaattcttgatgatagaaaaagttagtatcatcttctcatatttttg---ctactacagAGGATGACACAAGCGTACCAGTGGAGATCAAAGTTCCAATTCTGATAGCTTTCCACCGTCATATATACGATGGTGACTGGCATTTTTCAT
                                     ||  ||  |    || | || ||     ||||  ||| |   ||  ||  | |  | | |  |    | | || |     || | ||   ||  |||||||||||| |||||| | |     ||  ||||||| || |||||||||||||| || ||||||||||| ||  |||||||||||||| |||
-----------------------------------tgttatttcaaaatttcctgttatctcttactttcagttatactatg-ttactaagtggatatatgctcaccctcctaattcatctatggttcttttacagAGGATGATACAAGCATTCGTACAGATGTCAAAGTGCCTATTCTGATAGCTTTTCATCGTCATATATATGACCGTGACTGGCATTTTGCAT
















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|86060546|gb|DR356303.1|DR356303
EST:     GTGTGTGTGTTCTACTTGATTCTCCGAGCTCTTGATACTGTTG                         AGGATGACACAAGCGTACCAGTGGACATCAAAGTTCCAATTCTGATAGCTT
genomic: GTGTGTGTGTTCTACTTGATTCTCCGAGCTCTTGATACTGTTGgttagtgctt ... gctactacagAGGATGACACAAGCGTACCAGTGGAGATCAAAGTTCCAATTCTGATAGCTT
EST: gi|86047504|gb|DR343259.1|DR343259
EST:     GTGTGTGTGTTCTACTTGATTCTCCGAGCTCTTGATACTGTTG                         AGGATGACACAAGCGTACCAGTGGACATCAAAGTTCCAATTCTGATAGCTT
genomic: GTGTGTGTGTTCTACTTGATTCTCCGAGCTCTTGATACTGTTGgttagtgctt ... gctactacagAGGATGACACAAGCGTACCAGTGGAGATCAAAGTTCCAATTCTGATAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcttgatgatagaaaaagttagtatcatcttctcatatttttgctactacagAGGATGACACAAGCGTACCAGTGGAGATCAAAGTTCCAATTCTGATAGCTTTCCACCGTCATATATACGATGGTGACTGGCATTTTTCAT
                                        tttttgct  CT-rich tract
                                   tcatattttt  TA-rich tract