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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaaaacagagtaggttcctcgtccctttagctttaacacatgagctcttacaatgcggagtttctattgttgtaactgattgtttctccctggaatagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT

Basic information

species Arabidopsis thaliana
transcript AT3G05870.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G162356_T01 (Zea mays), 3'ss of exon 1
----------------------------------------------------------------------------------------------aaaaaaacaga--gtaggttcctcgtccctttagctttaacacatgagctcttacaatg--cggagtttctattgtt-gtaactgattgtttctc---------cctggaa-----------tagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
                                                                                              |   |||| |    ||  || || || |  |    | |  || ||||     | || ||     |   ||| |||||  ||  |  |||  |  |           || |            |   ||||||||||| ||||| ||||| |||||||| || || || |||||||| |||||  |||||||||||||                            
gtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaattcaaactgcccatacattacttgttcaatggattctg-catatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA----------------------------

upper sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G28310.1 (Glycine max), 3'ss of exon 1
aaaaaaacagagtaggttcctcgtccctttagctttaa------cacatgagctcttacaatgcggagtttctattgttgtaactgattgtttctccctgga-atagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
             |  ||  | | | |  ||| ||  |      ||  ||   |   || |     ||    |  |    |  || |||   | |      | ||||||||||||| |||||||||||||| |||||||| || || ||||| |||||||| ||| ||||||| |||||||| ||||||||||| || |||||||||
-------ttttccaaatttttagcctccctagtttctatcttttcatttgctttgcgactaaatcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT

upper sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 1
aaaaaaacagagtaggttcctcgtccctttag--ctttaacacatgagctcttacaatgcggagtttctattgttgtaactgattgtttctccctgga-atagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
 ||     |   |   ||    | | | |||   ||||| |   | |  | | || |  |  ||    |  |  | |   || ||   | |      | |||||||||||||  ||||||| ||||| |||||||| || |||||||| |||||||| ||| ||||||| |||||||| ||||||||||| || |||||||||
-aatttttattctgaattttcagcctccttaattctttatctattcatttgtaactaaaccaagaacatcctaattt--ttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT

upper sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------------------------------aaaaaaacagagtaggttcctcgtccctttagct-ttaacacatgagctcttacaatgcggagtttctattgttgtaac---tgattgtttctccctggaa------tagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
                                                      |  ||  | | ||   ||     |   || | | || ||        |   |   | |    ||| ||| ||   ||    | ||||||   | ||| ||      ||| |||||||| || || ||||||||||||||||| ||||| ||||| |||||||| ||| ||||||| ||||||||||||||||||||||| ||||| |||
gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaata--ctcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT

upper sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0060g00290.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------aaaaaaacagagtaggttcctcgtccctttagct-ttaacacatgagctcttacaatgcggagtttctattgttgtaac---tgattgtttctccctggaa------tagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
                                                      |  ||  | | ||   ||     |   || | | || ||        |   |   | |    ||| ||| ||   ||    | ||||||   | ||| ||      ||| |||||||| || || ||||||||||||||||| ||||| ||||| |||||||| ||| ||||||| ||||||||||||||||||||||| ||||| |||
gtttttatatctggtactcaataattatatctttgactagatttccttttttctatgaagaaaaata--ctcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcttacaatgcggagtttctattgttgtaactgattgtttctccctggaatagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
                                    ttgtttctccct  CT-rich tract
                 tttctatt  TA-rich tract