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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATATATACACAGACGATTCCGATCTTGTTGCTG

Basic information

species Arabidopsis thaliana
transcript AT5G08450.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 3
gtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttc-cagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATATATACACAGACGATTCCGATCTTGTTGCTG
                                                                       |||   |||       || |   | || ||    | |      |||||  |   ||       | | ||  || ||  | | ||||||| |    |   |  |||||||||||  ||||  ||||| ||||||||||||||||| ||| | ||||| |||||||| ||||
-----------------------------------------------------------------------tatccctttcccagatagacccctcatgtgggacagtgggaa-gcctacaacactggat----ctgttctttttttattcatttgctgaaa----tcatttttgtgcagGTAAAGGGTGCTCAACTTTGGGGAACAGATATATATACAAATGATTCAGATCTTGTGGCTG

upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G31960.1 (Glycine max), 3'ss of exon 4
gtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATATATACACAGACGATTCCGATCTTGTTGCTG
                                                               ||| |   |  |    || || ||   | |  | | |   ||    | |    |    ||     |||  | |||  |   | | ||    | |   |||||    |  | | ||||| ||||||||||| || ||||| || ||| | |||||| ||||||| |||||||||||||
---------------------------------------------------------------ttgttctctgaa----taatttcaaaatctaaaacaggaaaacattcatgatttccctat-----aaatgctgctatcc-atgtcttgagagtt---acatta---ttatattcagGTCAGAGGTGGCCAGCTTTGGGGGACCGATGTGTACACATACGATTCAGATCTTGTTGCTG

upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 3
gtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttggc-tcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATATATACACAGACGATTCCGATCTTGTTGCTG
                                                                | || |   || |   | || ||   | |  | | |  ||||          ||| | |||      |  |      ||| |    |  |  |||||  |  |   |  | | ||||| ||||||||||| || ||||| || ||| | |||||| ||||||| |||||||||||||
----------------------------------------------------------------ttgttctcttaat---aatttcaaattctaaaacagaataat-------atttatgatttt------cctattgatgttgctatccatgtcttgagagttacgttattatattcagGTCAGAGGTGGCCAGCTTTGGGGGACCGATGTGTACACATACGATTCAGATCTTGTTGCTG

upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 3'ss of exon 3
gtaagtcgaatatatatccaaatttttctcataatcattttcattgtttttcttctagatgacttggtgcatatagttttagttccagtcttttgatctgtttaattcacttcgcctattaatttgagaaacacagctcccttgtttgttacttgctgagacatttgg--ctcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATATATACACAGACGATTCCGATCTTGTTGCTG
                                                                               | ||| |    |    | |||  |  |  || ||  | | | | |||        | |     ||||||   | |  | ||   ||||    || ||| ||||| ||||| |||||| ||||||| |||||||||||||| || || || |||||||||||||
-------------------------------------------------------------------------------tggttgc--cttgcaaacctgcctcttaaacctcaaccacttacttgctccttgaatccttactgtttgaatcctcttaagtgctttgtgcttcatgtacagGTCAGAGGCGGCCAATTATGGGGGACAGATATATACACTGATGACTCAGATCTTGTTGCTG

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|163984539|gb|ES092500.1|ES092500
EST:     CTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAA                         GTAAGAGGTGGCCAACTATGGGGAACAGATA
genomic: CTCTTGAAGTTAGGATTCCAGCTGAGCATGTTACTGCTACAAATCGCCAAgtaagtcgaa ... tcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagaaacacagctcccttgtttgttacttgctgagacatttggctcgtgtgcagGTAAGAGGTGGCCAACTATGGGGAACAGATATATACACAGACGATTCCGATCTTGTTGCTG
                    tttgtta  TA-rich tract