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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgctttgagtagagtttgttttcatcatatatgttattaagttgctaatcattgttctgtttttcggttcagGCAAAGACTTCTCTAACAACGTTTCCTGCATCCGCGGAGATTGTGTCTGAGCCTCTTGGTGTTGTGCTAGTGATCTCGGCTTGGAACTATCCTTTTC

Basic information

species Arabidopsis thaliana
transcript AT1G44170.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G44170.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os11g08300.1 (Oryza sativa), 3'ss of exon 2
------------------------gtttgtgctttgagtagagtttgtt-----ttcatcatatatgttattaagttgctaatcattgttctgtttttcggt-----tcagGCAAAGACTTCTCTAACAACGTTTCCTGCATCCGCGGAGATTGTGTCTGAGCCTCTTGGTGTTGTGCTAGTGATCTCGGCTTGGAACTATCCTTTTC
                        |||   |  |  ||||   |   ||     || ||  | | ||||  | || ||||||||||  |     |  |   |     ||||| |    |  | || || || || ||  || | ||  | |||||||| |||||||||||||| || ||||| ||||| || |||||||| |||||  
gtagtactactatttcttttgcatgttca-gtctccagtactatccattaaaagtttattcttt-tgttgatcagatgctaatcatgctaaccctcataaatgatgatcagGTACCTGCCGCCCTCACTACATTCCCATCAACTGCACAAATTGTGTCAGAGCCTCTTGGTGTCGTCCTAGTCATCTCAGCATGGAACTACCCTTTCT
















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|125307533|gb|EL321618.1|EL321618
EST:     CTATCAAGTTGGCTCTTAAGCAGCTAAAGAACTGGATGGCTCCGGAGAAG                         GCAAAGACTTCTCTAACAACGTTTCCTGCATCCGC
genomic: CTATCAAGTTGGCTCTTAAGCAGCTAAAGAACTGGATGGCTCCGGAGAAGgtttgtgctt ... ttcggttcagGCAAAGACTTCTCTAACAACGTTTCCTGCATCCGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttcatcatatatgttattaagttgctaatcattgttctgtttttcggttcagGCAAAGACTTCTCTAACAACGTTTCCTGCATCCGCGGAGATTGTGTCTGAGCCTCTTGGTGTTGTGCTAGTGATCTCGGCTTGGAACTATCCTTTTC
                         tgctaat  putative branch site (score: 2)
                                  ttgttctgtttttc  putative PPT
      atcatatatgttatta  TA-rich tract