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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactctcatactctctttttcttctacttttattggttttacacatgtgtgaaactaacaaatctcatcttgtgtgtttgaagGGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTGCTTGCATTGTTGGTAGTGATGAACTTTCCGAGGCTTCTCAGATACTCTCTT

Basic information

species Arabidopsis thaliana
transcript AT1G63830.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G63830.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os03g03180.1 (Oryza sativa), 3'ss of exon 5
---------gtactctcatactctctttttcttctactttta---------ttggttttacacatgtgtgaaactaacaaatctca------tcttgtgtgtttgaagGGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTGCTTGCATTGTTGGTAGTGATGAACTTTCCGAGGCTTCTCAGATACTCTCTT
          |   ||| |  | | | |||     |||||||             | || |   | | ||| ||||  | |   ||         | | |   || |||| || ||||||||||||   ||| ||||||| || ||||||||||||||    |||||||||||||| || ||||| |||||||| || || || || |
gtactgtcactgtcctcttgttgtttgttttactaacttttaggtataattcctatgttccctttctatgagactataacactgcagaagatcactcttttcctgtagGGCTTCATGTTCTGCCTCCAACAAATTGCTTGTATCTTCTCTATAGTTGCCGCTATTGTTGGTAGTGAAGAGCTTTCAGAGGCTTCCCAAATCCTTTCCT

upper sequence: AT1G63830.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G060564_T02 (Zea mays), 3'ss of exon 5
----------------------------gtactctcatactctctttttcttctacttttattggttttacacatg-tgtgaaactaac-aaatctcatcttgtgtgtttgaagGGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTGCTTGCATTGTTGGTAGTGATGAACTTTCCGAGGCTTCTCAGATACTCTCTT
                            ||    |   | ||    |    |  |   ||  || | || |    | ||| |     ||  ||| | | ||| | ||     |||| || ||||| |||||    |||||||||||||| ||||||||||||||    ||||||||||| || || ||||| |||||||| ||||| ||   ||
gtaacaccacttgcctcttaaatttcctgtctgatgcgattcaacgtcctgtggagggttcctgttctttcttccgatgtcacttggactgaatataaccttttatgc----agGGCTTCATGTTATGCCTTCAACAAGTTGCTTGCATCTTCTCTATAGTTGCAGCTATTGTTGGTAGCGAGGAGCTTTCAGAGGCTTCCCAGATCCTTAATT
















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|125277681|gb|EL291766.1|EL291766
EST:     TGCAGGATGAATTCAACATCCAGACAACACAATGCGACAATTGCATAATT                         GGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCA
genomic: TGCAGGATGAATTCAACATCCAGACAACACAATGCGACAATTGCATAATTgtactctcat ... gtgtttgaagGGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCA
EST: gi|124851167|gb|EH935604.1|EH935604
EST:     TTCAACATCCAGACAACACAATGCGACAATTGCATAATT                         GGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTG
genomic: TTCAACATCCAGACAACACAATGCGACAATTGCATAATTgtactctcat ... gtgtttgaagGGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTG
EST: gi|124916010|gb|EH989884.1|EH989884
EST:     ATCCAGACAACACAATGCGACAATTGCATAATT                         GGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTG
genomic: ATCCAGACAACACAATGCGACAATTGCATAATTgtactctcat ... gtgtttgaagGGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattggttttacacatgtgtgaaactaacaaatctcatcttgtgtgtttgaagGGATTTATGTTCTGCCTCAGCCAAGTTGCTTGCATATTCTCTATAGTTGCTTGCATTGTTGGTAGTGATGAACTTTCCGAGGCTTCTCAGATACTCTCTT
                        aactaac  putative branch site (score: 1)
                           taacaaat  TA-rich tract