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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtagaagaagtttgattatatattgtttgttggtggtagttttctggatttatttagataacccacttgttacttttaacaagctatctattcttttgtttccttttgcttatgccatgtagAATGAGAAGATGGAAACTGTTGGATCAGAAACAGAGGCTTATGCCATAGCCGATACTATTTCT

Basic information

species Arabidopsis thaliana
transcript AT1G49970.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49970.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv03s0091g00700.t01 (Vitis vinifera), 3'ss of exon 4
gtcag---tagaaga----agtttgattata---tattgtttgttggtggtagttttctg-gatttatttagataaccc-acttgttacttttaacaagctatctattct-tttgtttccttttgcttatgccatg-------tagAATGAGAAGATGGAAACTGTTGGATCAGAAACAGAGGCTTATGCCATAGCCGATACTATTTCT
|| ||   | ||| |    | ||| || |||   | || ||   |  | |      |     ||||  | || |  ||  | || ||    |   |||  | | ||| |  | |||||   |||| || |   |||       ||||||||||||||||| ||||||||||| ||||| ||||| ||||| || || ||| | ||  | 
gttagctctggaatacattattttaataatactgttttcttcactatttgagacactaaataattttctgaggttgccttagtttttctcatcttcaaagtttgtatcccatctgttttaatttggttctatgatgcaattcttagAATGAGAAGATGGAGACTGTTGGATCTGAAACTGAGGCATATGCTATTGCTGATTCCATGGCG
















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|124923454|gb|EL001647.1|EL001647
EST:     ATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGACCCAG                         AATGAGAAGATGGAAA
genomic: ATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGACCCAGgtcagtagaa ... tgccatgtagAATGAGAAGATGGAAA
EST: gi|47831292|gb|CK120976.1|CK120976
EST:     ATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGACCCAG                         AATGAGAAGATGGAAACTGTTGGATCAGAAACAGAGGCTTATGCCATAGCC
genomic: ATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGACCCAGgtcagtagaa ... tgccatgtagAATGAGAAGATGGAAACTGTTGGATCAGAAACAGAGGCTTATGCCATAGCC
EST: gi|47829642|gb|CK119326.1|CK119326
EST:     ATAACCCAACAAAGCCCATCTACCTATATATAAATTCACCCGGGACCCAG                         AATGAGAAGATGGAAACTGGTGGATCAGAAACAGAGGCTTATGCCATAGCC
genomic: ATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGACCCAGgtcagtagaa ... tgccatgtagAATGAGAAGATGGAAACTGTTGGATCAGAAACAGAGGCTTATGCCATAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttacttttaacaagctatctattcttttgtttccttttgcttatgccatgtagAATGAGAAGATGGAAACTGTTGGATCAGAAACAGAGGCTTATGCCATAGCCGATACTATTTCT
      ttttaac  putative branch site (score: 2)
                   tctattcttttgtttc  putative PPT
      ttttaacaa  TA-rich tract