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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgagcctatcaaaaaccgttgatcgtatcacaatgttgtttatccgtgtcaattctaactttcagttttcctctgttctatgttgtagCCATTTGTGGACAGCTTATCCCAGTGCCCGAAACATGGTCTCCATAACCCTTTCAAATCTCCAGAGAG

Basic information

species Arabidopsis thaliana
transcript AT5G62530.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G62530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------------------------------------------------------------gtacgagcctatcaaaaaccgttgatcgtatcacaatgttgtttatccgt-gtcaattctaactttcagttttcctctgttctatgt-tgtagCCATTTGTGGACAGCTTATCCCAGTGCCCGAAACATGGTCTCCATAACCCTTTCAAATCTCCAGAGAG
                                                                                                           |||         |   |    || || || | | |  |||    ||   | || |||   ||  | || |     | |  |   ||| || ||||||||||||||||||| ||| ||||||| ||||||||||| ||||| || || ||| | || || ||
gtatgattttggaatatgtcttataattctgcattcttttccaatagagcttgcccttttctgagtgtagagtatatgtttcaactaatgaatgcacaccttggtttgtatacttaaggctgtagattttcattgtgttaaatagttaaaaatgtttagtaaatgtcaaagtacattaaagattttgtgactgtatgcagCCATTTGTGGACAGCTTGTCCAAGTGCCCCAAACATGGTCTACATAATCCATTTAAAGCACCTGAAAG
















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|86069296|gb|DR365053.1|DR365053
EST:     ATGGAGAACCTTTTATCAAAGTTGCTGAAGTGGATGAATCAGGAACTCAG                         CCATTTGTGGACAGCTTATCCCAGTGCCCGAAACATGGTCTCCATAACCCT
genomic: ATGGAGAACCGTTTATCAAAGTTGCGGAAGTGGATGAATCAGGAACTCAGgtacgagcct ... tatgttgtagCCATTTGTGGACAGCTTATCCCAGTGCCCGAAACATGGTCTCCATAACCCT
EST: gi|86069297|gb|DR365054.1|DR365054
EST:     ATGGAGAACCTTTTATCAAAGTTGCTGAAGTGGATGAATCAGGAACTCAG                         CCATTTGTGGACAGCTTATCCCAGTGCCCGAAACATGGTCTCCATAACCCT
genomic: ATGGAGAACCGTTTATCAAAGTTGCGGAAGTGGATGAATCAGGAACTCAGgtacgagcct ... tatgttgtagCCATTTGTGGACAGCTTATCCCAGTGCCCGAAACATGGTCTCCATAACCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgtttatccgtgtcaattctaactttcagttttcctctgttctatgttgtagCCATTTGTGGACAGCTTATCCCAGTGCCCGAAACATGGTCTCCATAACCCTTTCAAATCTCCAGAGAG
                   ttctaac  putative branch site (score: 1)
                         ctttcagttttcctct  CT-rich tract
                 aattctaa  TA-rich tract