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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttcgattctttgatttcttgttctatagtttcttgaagtatttggttactttcttgttggtaaatatgcctgctttctgcatatggatttgattttgaagacaattttctttatctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCACATGGTTTACTTCTCTTCTTGTATCAG

Basic information

species Arabidopsis thaliana
transcript AT1G13560.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13560.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv01s0010g00950.t01 (Vitis vinifera), 3'ss of exon 4
gtgagtttcgattctttgatttcttgttctatagtttcttgaagtatttggttactttcttgttggtaa-atatgcctgctttctgcatatggatttgattttgaagacaattttctttatctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCACATGGTTTACTTCTCTTCTTGTATCAG
                    | |||    |||    | |  |  ||||  |  |  |  |||||  | | | || ||    |  | | |  | |||||||    || | || |||| ||       |||||||||||| ||||  ||||||||  |||| ||| ||||||| ||||| || |||||||||||||| ||||| || |||
-------------------gtgcttaacttatgaaatgtgaacttattaagcaatgtatttgtttttgataaattcccaagtcttccttgagcatttgat----aaaaaaactttcatt-------tcagATATATTCTCCTCGTTTGGATTCAGCTCCACCAAGATGGGTGCACTTTGCTCATGGTTTACTTCTTTTCTTATACCAG
















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|86070079|gb|DR365836.1|DR365836
EST:     TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTAT                         ATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
genomic: TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTATgtgagtttcg ... tctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
EST: gi|86070083|gb|DR365840.1|DR365840
EST:     TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGNTAT                         ATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
genomic: TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTATgtgagtttcg ... tctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
EST: gi|86070078|gb|DR365835.1|DR365835
EST:     TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTAT                         ATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
genomic: TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTATgtgagtttcg ... tctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
EST: gi|86070080|gb|DR365837.1|DR365837
EST:     TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTAT                         ATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
genomic: TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTATgtgagtttcg ... tctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
EST: gi|86070077|gb|DR365834.1|DR365834
EST:     TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTAT                         ATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
genomic: TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTATgtgagtttcg ... tctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
EST: gi|86070082|gb|DR365839.1|DR365839
EST:     TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTAT                         ATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA
genomic: TAACGCTTATGGGGTTTATGTTTCTAGTCACTTCCTCCCTGCTAGGCTATgtgagtttcg ... tctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgctttctgcatatggatttgattttgaagacaattttctttatctgtctcagATATATTCACCTCAGTTGGATTCTCCTCCTCCACGATGGGTTCACTTCGCACATGGTTTACTTCTCTTCTTGTATCAG
                  atttgat  putative branch site (score: 5)
                                    ttttctttatctgtct  putative PPT
                                acaattttctttat  TA-rich tract