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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaagaaacatatttgtttatcctctttagaacatttcaagatatttaatcttttgctgagttcaatattccttggatctatatgctctgattaaccccagtgaaactactaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG

Basic information

species Arabidopsis thaliana
transcript AT2G01130.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 2
gtaagtaagaaacatatttgtttatcctctttagaacatttcaagatatttaatcttttgctgagttc-aatattccttggatctatatgctctgattaaccccagtgaaact-actaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG
                                        |||  |   ||| || |  |     | | ||  |  | | |||  |       |  || |      ||   || | |  |    |     ||| |  |||| || || ||||| ||||| ||||  || ||||| |||||||| || || ||  || ||||||| ||||| ||||||||||||||||| ||||||||||
---------------------------------------atcagtagggttattcataagagagatcctaacctagcctagattaaagcatcttattttattaggatggccctcattggttgcatacatctcatttcagGGTTTCACTTATCCTGTTCGGAGTCGATTTCTAGAAGATATTCTCGAAATTACTGGGCACAGATTAACTCCTTACAATCAAATTGATGACTATGGTCAAG

upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
gtaagtaagaaacatatttgtttatcctctttagaacatttcaagatatttaatcttttgctgagttcaatattccttggatctatatgctctgattaaccccagtgaaactactaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG
                            |  || ||  | |    || | |  |  |||||||     |   |    || |  | |||    |||    |     | |||     ||   | |  |||  ||| ||||| ||||||||||| || || |||||||| || || |||||||| || || ||  || || | || ||||||||||||||||||||||| ||||||||||
--------------------------tgcaataaaatttgtttgaatgtcttgtgctttgctg----tagcttcttgtgtaagt-tatatcttgacgtcctttcataaaa-----aacggttttatctcaact-tagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG

upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA09G18490.1 (Glycine max), 3'ss of exon 3
gtaagtaagaaacatatttgtttatcctctttagaacatttcaagatatttaatcttttgctgagt-tcaatattccttggatctatatgctctgattaaccccagtgaaactactaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG
                               ||     |||     ||||| || ||   |||||  | | ||||  |||| |||  | |||   | |  |||      |     |     |||  |    | ||||||| || ||||| || ||| | | ||| ||  | |||||||||||||| ||| |  | ||||||||||||||  |||||||||||||||| ||||||||||
------------------------------ctattttgtttt----tatttgatgtt--actgagcattactatt--ttggctctgaaagctaaaagtttcccattcttattgtttggggatgtgatggctaatatagGGTTTCACATACCCTGTTAGAACTCAATTTTTGGAGGATATTCTGGAAATGTCGGGCTACAGATTGACTCCTGACAATCAAATTGATGACTATGGTCAAG

upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G25800.1 (Glycine max), 3'ss of exon 11
gtaagtaagaaacatatttgtttatcctctttagaacatttcaagatatttaatcttttgctgagttcaatattccttggatctatatgctctgattaaccccagtgaaactactaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG
                                  ||      ||  | ||| || |   |   | |    |  | | | || |||||   | |  ||   |  | ||     |   ||||     |  | | ||||||| || ||||| || ||| | | ||| ||  | ||| | ||||| || |||||  | |||||||| ||||| || |||||||| ||||||||||||||||
----------------------------------aattgcataattttttttatataaaggataatattttggtgcctagaactatagattttcctttttcttattgtttggatggatatg---cttattaatatagGGCTTCACATACCCCGTTAGAACTCACTTTTTGGAGAACATTCTTGAAATGACGGGCTACAGATTAACTCCTTATAATCAAATCGATGATTATGGTCAAG

upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtaagaaacatatttgtttatcctctttagaacatttcaagatatttaatcttttgctgagttcaatattccttggatctatat-gctctgattaaccccagtgaaactactaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG
                                    || ||  | || ||        ||  |  |  ||  | || || |    |   ||||   |       | |  |  |  |  || ||| ||||    | ||||| |||||||| ||| || | |   ||||||| ||  |||||||||| |||||  | |||||||||||||| ||||||||| |||||||||||||||| |
------------------------------------cagttggaaattttagtcagagtggaggatgaaaactcccatgtaatggtggagctcatgtcttttttattttatttttt--taatgttttctgtgatgtagGGTTTTACATACCCAATTAGAACGTATTTCCTGGAAAATATTCTGGAAATGACAGGATACAGATTGACTCCGTACAATCAAGTTGATGATTATGGTCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatatgctctgattaaccccagtgaaactactaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG
                             tactaat  putative branch site (score: 1)
                                     ttgtcttcttcact  CT-rich tract
                         aaactactaatatt  TA-rich tract