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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtaatttacaatgagctttgttaaatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC

Basic information

species Arabidopsis thaliana
transcript AT5G18190.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os03g57940.2 (Oryza sativa), 3'ss of exon 5
--gtatgtaatttacaatgagctttgttaaatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
  |  | ||  |||      |  |||  |||| |  | | ||     | |   ||||  | | |||  |   |   || ||    ||||||| ||||| ||||||||||| || ||||||||||| ||||||||   ||| ||  |
gtgcgtttacctta-gtcatgtattgaaaaatgt-ttctggactcaaaataaattattttattcaaccatcacaccaaaat----ttcagGTAATGGATATGCTTGGTCCCAGCCTCTGGGATGTGTGGAATTCAGTGGGACAGGC

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 3'ss of exon 5
gtatgtaatttacaatgagctttgttaaatatacttt--cgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
    || | ||  | |||  ||  | ||  || || |   |  || ||        | || |  |  ||||  ||    | ||  | ||||||||||| ||||||||||| || || |||||||| |||||||| |  |||||  |
----gtgagtt-tactgaagttaat-aaccattctatgctgccatggagctcaacgt-atcttgacttaatcttaattaaaattttccagGTCATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGAC

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g56580.2 (Oryza sativa), 3'ss of exon 5
gtatgtaatttacaatgagctttgttaaatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatata----cttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
                   |  |  || |   | |||| | |||| ||| | |    |    ||  | ||||| ||| | ||     ||||||| |||||||| || || || ||||| ||||||||||||||||||   |||||  |
-----------------gtcagtcgtataagcattttcta-attgtttgagattcttttcttaacaactgctaaaatttgtaaccttttcagGTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGAC

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G037923_T02 (Zea mays), 3'ss of exon 5
gtatgtaatttacaatgagctttgttaaatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
               |||| |   |||    |||| |  || || ||||     |||   |    || |    |||  | |  ||||||| ||||| ||||||||||| || || |||||||| ||||||||   ||||||  |
--------------gtgagttcgattat---tactct--at-ttcattgcagc-tcaacaatgtttattcacttaactttt-tttcagGTAATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCGATGGGGCAGGC

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 5
gtatgtaatttacaatgagctttgttaaatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
   ||  || |    ||| ||||   | ||   | |   || |||||| || | |  |||     ||| |  | |  ||||| |||||||||||||||||||||| || ||||| |||||||| |||||||||   || |||  
--gtgagatatggtttgaactttaccatatcagcat---atgttgatt-tgctctt-tgt-tgtctaaaggaaaacaatatatttcagGTCATGGACATGCTTGGGCCCAGTCTTTGGGATGTATGGAATTCTGTTGGTCAACA

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 5
gtatgtaatttacaatgagctttgtta--aatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
   ||   |||    |||  ||  | |  |  |    ||| | ||| |       ||  ||    | | |   || |||| | |  |||||||||||||||| | || || ||||| |||||| |||||||||||   || ||  |
--gtgagttttggtttgaaattgttcatcatcaggacttccaaatttaca----cattgtgcctgaatta-aataaaataaacatgtcagGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGAC

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------------gtatgtaatttacaatgagctttgttaaat--atactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
                                      |  | ||| ||    |   | ||   |  | |||||    ||   || | | ||    |         | |     |||| || ||||||||||| |||||||| || |||||||||||||| ||||| ||||| || ||| |
gtgagtcacctattgaattgttgtagtccaagcagaccttcagttttcatgtggtcgtcttgttttcaaacttttctcatgatttttttaattcgatttcgacttcgtt----catatgctgcagGTCATGGATATGCTTGGGCCAAGTCTCTGGGATGTCTGGAACTCTTCAGGTCAAGC

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------------------------gtatgtaatttacaatgagctttgttaaatat--actttcgatattgattgtgttatcatgtaca----agtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
                                         ||  |   ||    |    | |     || |  | |||   ||    || | ||   |  ||||    | | |  |  | |||| |  | ||||||||||| |||||||| || ||||| |||||||||||||| ||||| || ||  |
gtgggctattcacagaaaatagatgaatttacacatgctgatagatttcttgtctttgattattcccgatttgaaatttttgtacgagttctcttccgaaatacattttattcacccgttgatatcttgtccagGTCATGGATATGCTTGGGCCAAGTCTTTGGGATGTTTGGAACTCTTCAGGCCAGGC

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S39_28V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------------------------------------------------------gtatgtaatttacaatgagctttgttaaatatactttcgatattgattgtgttatcatgtacaagtaatgctataat--atatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
                                                               | |  || ||       | ||| || | | || ||  | |||| |||   ||||  | |     |  ||   |  |  | ||  |  || ||| ||| |||||||| || |||||||||||||||||||| ||||| |  ||| |
gtgagtcatctattgaattgttgtagtccaagtagaccttcaattttcatgtagtcgtcttcttttcaaacttgtctcatgatttattta-tttatttatg-tatttatttaattattttattttgattttgacttcgttcacatgttgtagATCAGGGATATGCTTGGACCAAGTCTCTGGGATGTTTGGAACTCTTCAGATCAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
       tattgat  putative branch site (score: 3)
                                taatgctataatatat  TA-rich tract