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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcaagcctcttccacttattttatttcatatatgaaaatgtatagttttggacttgtaattaattaatatgtatatatgcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA

Basic information

species Arabidopsis thaliana
transcript AT5G41310.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G41310.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gttcaagcctcttccacttattttatttcatatatgaaaat---gtatagttttggacttgt---aattaatt--aatatgtatatat--gcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA
                  ||| || ||| | | ||| ||||   |||||   ||     |||   ||| ||||  ||||  ||| | |     | |||  || |||||||  || | || |||  ||||||||||  |||||||||| | |||||| ||||| ||||||||||| || || ||||| ||||| |||||
-----------------gtatatttttttaca-atggaaatctggtataagcttatctgtgtgcaaataaattctaatacttatctttcaatttacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: AT5G41310.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
-------------------------gttcaagcctcttccacttatt--ttatttcatat-atgaaaatgtatagttttggacttgtaattaattaatatgtatatatgcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA
                          |||| |  | ||    ||| |  || |||  |||  |  ||||  |||||  ||    |  || | ||  ||   ||| | |   || || |||| | |||   || |||| |||  ||||||||||  |||||||||| |||||||| ||||||||||||||||| || || || || |||||||| ||
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatg----ttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA

upper sequence: AT5G41310.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA08G01800.1 (Glycine max), 3'ss of exon 13
--------------------------------------gttcaagcctcttccacttattttatttcatatatgaaaatgtatagttttggacttgtaattaattaatatg----tatatatgcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA
                                       ||        |   | |  | ||  | | | | |   | |||  |  ||   | |  |  |||| | |||||    ||| | |   || ||||||| | |||   || |||| |||  ||||||||||  |||||||||| |||||||| ||||||||||||||||| || || || || |||||||| ||
gtactgcgtttttttttcttttctctttcatgattattattattattattattattattattggtacttgttttctattgttgaaattgatagtaatgtttaacttatatgtcaatatttttctttgtagAGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACTGGCTCGGGAAAGACATA

upper sequence: AT5G41310.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv02s0025g03480.t01 (Vitis vinifera), 3'ss of exon 14
---------------------------------------------------gttcaagcctct--tccacttattttatttcatatatgaaaatgtatagttttggacttgtaa--ttaattaatatgtatat-atgcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA
                                                     |||    |||  ||||||||   |  ||    || ||||      |  |||  ||||   |  || |||  ||| || ||  ||    ||||||| || || ||||| |||| |||  | ||||||||  | |||||||| |||||||| ||||||||||| ||||| || || || |||||||| || ||
gttatcttcttataatattttatatttggccttgtttctttatttgtatatcctcagatttctattccacttagcatgcttttgttaggaaag-----aacttttaacttactacctttatttgtatatacattgtgttatcagAGGAGGTATTTTTAGACACTCAACCATTAATTCGATCTGTACTTGATGGATACAATGTCTGTATATTTGCCTATGGTCAAACTGGCTCTGGAAAAACCTA

upper sequence: AT5G41310.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S34_101V6.1 (Physcomitrella patens), 3'ss of exon 13
-----gttcaagcctcttccacttattttatttcatatatgaaaatgtatagttttggacttgtaattaattaatatgtatata-------tgcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA
      |  |    | ||    ||  |    |  | | ||  |      | | |||  ||| ||| ||  | |  ||  || ||       |  || ||||||| |||||  |||| || |  ||  |||| || ||  |  | ||||| |  ||||||||||| |||||||||||||| ||||| ||||||||||| ||
ttataatatagtatttttgtcgttcatgctctcaagaaatcgagcctcttggcttttaactcgtattttctgatgatagatttaatgttggtttgttcagAGGAGGTTTTTCTAGACACACAGCCATTGATACGGTCTGTATTGGATGGATTTAATGTATGTATCTTTGCTTATGGCCAAACGGGGTCTGGAAAGACCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaaaatgtatagttttggacttgtaattaattaatatgtatatatgcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA
                              aattaat  putative branch site (score: 3)
                    acttgtaattaattaa  TA-rich tract