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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttcaccattaccaatttcttttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG

Basic information

species Arabidopsis thaliana
transcript AT1G52360.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G419984_T01 (Zea mays), 3'ss of exon 7
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttcaccattaccaatttcttttattgtccttccat---ttgtaatcccaatttcctaatgtct-gttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                                     |      ||||     | ||| | | |   ||   | |   |  || |  |  |||    ||  ||     ||   | || ||| |   | |  || || || ||||||||| | || |||||||||||||||||||||||  |||| ||||| ||  | ||  |  |
------------------------------------------------------------------------------------ggaaaatgttctatactaatttctgaacgccacttgtgttgctctttataatctcatatcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 7
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgc-actt-tttcaccattaccaatttcttttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                          ||| | |   ||| |   | |  ||||  ||| | | ||  ||   ||||||    ||  ||||    | |    ||    |||  || | |    | ||| ||| || || ||||||||| | || |||||||||||||||||||||||  |||| ||||| ||  | ||| |  |
------------------------------------------------------------------------atatc-ctatactggttgagtccgagtgctgcttgtgttactctttataatttc----ataatcctaaggtgt----tctttgttttatactttgaactattt-ttgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGATCAAGAAG

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttcaccattaccaatttcttttattgtccttccatt-tgtaatcccaatttcctaatgtct-gttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                                   | |      ||||       ||| | | |   ||   | |   |  || |  |  |||  ||  ||     ||   | || ||| |   | |  || || || ||||||||| | || |||||||||||||||||||||||  |||| ||||| ||  | ||  |  |
----------------------------------------------------------------------------------ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatctcatcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttg-tgcactttttcaccattaccaatttcttttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                           | | || |||   |    | ||  |  | ||  |    | ||   | ||  |    | |      |||    ||   |||||    |||  |   ||| |||||||||| ||||||||||| || ||||| ||||| ||||||||||| ||||| ||| | || ||||| || ||
---------------------------------------------------------------------------tttacagttt--ttaagctgttactaaatttagttggaagtat--actttgtaagatatatactaattctccattttaattttt--atggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 8
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttcaccattaccaatttcttttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                             | ||  ||      |||       | ||  |    | |    |||     |||  |||   ||| | |||    | |||  |  ||      | | |||||||||| |||||||||||||| ||||| ||||| ||||| ||||| ||||| ||  | ||  ||||||||||
----------------------------------------------------------------------------ttacatgtttttaagatttcaccaaaattagtttgaaattgagattatggatatattccagtcatctttaa----atttttatggtggtgcaatctgcttgcagGCTTGAGAACACATTGAACTATGGTCTTGAAAGAGTTTGGGCTATTGGATATCTGAAGGGTTCACGCCG

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 8
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttca-ccattaccaatttctttt---attgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                              | | |||   | | ||    | || ||||| | |   ||| || |    ||   | | |  ||       ||    | | |||   || ||  | | ||  |||||||| ||||||||||| || ||||| ||||| ||||||||||| ||||| ||| | || ||||| || ||
------------------------------------------------------------------------------ctattttatttccgtt----tacagtttttaagctgatactaaatgtagttggaagtatattttggaagatatatactaattctccatttcaatgtatt--tgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 8
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttcaccattaccaatttcttttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                             |   | |    ||  | ||||     ||||  |  ||  |  |  |  |  ||    ||  ||||| |||    | |||  |  |       | | |||||||||| |||||||||||||| ||| | ||||| ||||| ||||| ||||| ||| | ||  ||||||| ||
----------------------------------------------------------------------------tttttcataacatttctccttgaattattttgaaatatatctgagattatggatatatctgtcatttttaa----atttttatggttgtgtaatatgcttgcagGCTTGAGAACACATTGAACTATAGTCTTGAAAGAGTTTGGGCTATTGGATACCTGAAGGGTTCACGTCG

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 8
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttcaccattaccaattt--cttttattgtccttcca-tttgtaatc-ccaatttcctaatgtctgttttttc-ttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                                                                                      | ||  |  |  || | |  |  |  ||     |||   | ||||  ||  | | | | | ||||  || |    || |    | ||  ||   | |||||| |||||||| ||||||||||| ||||| ||||| |||||  |||| ||||| ||| ||||||||||
-------------------------------------------------------------------------------------tgttttttcttaatgtagtgatagatgatagatgattaaacctttagagttatgctagtctttaatttccgacagactgaaccttcttcattaactacagGCTCGAGAACACGTTGAATTATGGTCTTGAAAGAGTTTGGGCTGTTGGATACATGAAAGGTTCACGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
                              tcctaat  putative branch site (score: 2)
                                    tgtctgttttttctt  CT-rich tract
              atttgtaat  TA-rich tract