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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccttaagcatcatttctcacatttgacaacatcttttaagtttctcaaatttgctagatctatcaagtgttcctgatcttcagggtcaaatgctctttatatataatttcgtttactctaatcttcaagcctcggtttgattctttagGTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAATGATGTCTACATTGTCTATGAGTTAATGGACACTGATCTTCAGCGAATCC

Basic information

species Arabidopsis thaliana
transcript AT2G46070.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G46070.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os08g06060.1 (Oryza sativa), 3'ss of exon 2
gtaagccttaagcatcatttctcacatttgacaacatcttttaagtttctcaaatttgctagatctatcaagtgttcctgatcttcagggtcaaatgctctttatatataatttcgtttactctaatcttcaagcctcggtttgattctttagGTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAATGATGTCTACATTGTCTATGAGTTAATGGACACTGATCTTCAGCGAATCC
                                            || | | |  || || |    ||  | |  ||  |       | | | | ||  |    | | | |||||  |||           |||      |     ||    |||| ||  | || || || ||  || | || ||     | || | |||||||||||||||||||||||||||| | ||||||||||||||||| |   | |
--------------------------------------------gtcttttatcttggcaa----tactagggattgttag-----atgattagatagtaacaagaaacaattttttttgtgacttgtgacaaaatctagccatttttcacagGTCATCTCAATAAAGGACATCATACGGCCACCAAGGAGGGAGAACTTCAATGATGTCTACATTGTCTATGAGCTCATGGACACTGATCTTCACCACCTTC

upper sequence: AT2G46070.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G47140.1 (Glycine max), 3'ss of exon 2
gtaagccttaagcatcatttctcacatttgacaacatcttttaagtttctca--aatttgctagatctatcaagtgttcctgatcttcagggtcaaatgctctttatatataatttcgtttactctaatcttcaagcctcggtttgattctttagGTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAATGATGTCTACATTGTCTATGAGTTAATGGACACTGATCTTCAGCGAATCC-
                                             ||||     |  || ||   |  ||      |     ||| | |   |  ||| |  |||  | | ||    | | |||        |||       | | || |   |||| ||| || | ||||| ||| || |||| || ||  | |||| |||||||||||| |||||||| |||||||||||||| |||||||| || | |||   
---------------------------------------------tttcatgggagcttcctgattggattttaattctacaatcattat--tagaattcaatttgaa-acaaggctgctcactta-----ccaattacttctctaatgc---aggTGATAGCCCTTAAAGACATTATACGACCACCACAGAGGGATAACTTCAATGATGTGTACATTGTTTATGAGTTAATGGATACTGATCTGCATCAAATAAT

upper sequence: AT2G46070.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G39190.1 (Glycine max), 3'ss of exon 2
gtaagccttaagcatcatttctcacatttgacaacatcttttaagtttctcaaatttgctagatctatcaagtgtt--cctgatcttcagggtcaaatgctctttatatataatttcgtttactctaatcttcaagcctcggtttgattctttagGTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAATGATGTCTACATTGTCTATGAGTTAATGGACACTGATCTTCAGCGAATCC
                                            |||||       |  |   | |||    | ||    | |  ||||   | | |      ||  | | ||    | | |||        |||       | | || |   |||| ||| || | ||||| ||| |  |||| || ||| |  ||| ||||||||| || |||||||| |||||||||||||| |||||||| || | |||  
--------------------------------------------gtttcatgggagtttt---tttattggattttaattttacattcattattagaattcaatttgaaacaaggctgctcactta-----ccaattacttctctaatgc---agGTGATAGCCCTTAAAGACATTATTCGACCACCACAAAGGTATAACTTCAATGACGTGTACATTGTTTATGAGTTAATGGATACTGATCTGCATCAAATAA

upper sequence: AT2G46070.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0046g02010.t01 (Vitis vinifera), 3'ss of exon 2
gtaagccttaagcatcatttctcacatttgacaacatcttttaagtttctcaaatttgctagatctatcaagtgttcctgatcttcagggtcaaatgctctttatatataatttcgtttactctaatcttcaagcctcggtttgattctttagGTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAATGATGTCTACATTGTCTATGAGTTAATGGACACTGATCTTCAGCGAATCC
                                        || |||| ||    || | | | |  ||  ||  |     || ||    ||    | ||| |  |  |  | |   |||||| | |  |   | |||| |           |||||||   | | ||||| ||  || | || ||  |  | || | ||||||||||||||||||||| ||||| ||||||||||||||||| || |  ||  
---------------------------------------ctttagttactttggttcgtttgttggattcaggttctagaattttttatgt----tcctcctggtggaataatatatttactatcagttcttatcctccgc----------agGTTATTGTCTTGAAAGACATCATACGGCCACCTAAGAGGGAGAACTTCAATGATGTCTACATTGTTTATGAATTAATGGACACTGATCTGCATCAGATAA

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|19877463|gb|AU238294.1|AU238294
EST:     AGAGAACGCTACGTGAAATTAAACTTCTCAGGCATATGGATCATGAGAAC                         GTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAAT
genomic: AGAGAACGCTACGTGAAATTAAACTTCTCAGGCATATGGATCATGAGAACgtaagcctta ... gattctttagGTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttatatataatttcgtttactctaatcttcaagcctcggtttgattctttagGTTATAACCATCAAAGATATTGTAAGACCTCCGCAACGAGATATCTTCAATGATGTCTACATTGTCTATGAGTTAATGGACACTGATCTTCAGCGAATCC
                                               ttcttt  CT-rich tract
     atatataatttcgttt  TA-rich tract