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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatttaatgtgttctttagatttttttaattcatacatggatggtgattaaagctttatagtttcattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG

Basic information

species Glycine max
transcript GLYMA08G28890.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 3'ss of exon 13
----------------gttatttaatgtgttctttagattttttta-attcatac-atggatggtgattaaagctttatagtttcattccttaattatg---------cttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
                |  || |  ||  |   ||  ||||   || ||| |||  |  |    |  | ||    |   || ||  ||||||  | |||           | |  | |||||||||||||||  |||| || ||||| |||||||||||||| |||||||| || ||||| || ||||| || |||   || ||| ||
gtacaaatatttaccagaaatctgttgcatctattttatttagatagatttatattacaggaatttttgaatagctgccagatttcttccttcctaatgacatgcacctctatttgggcagGCAGAGAGTGCGATGGATCAGATGGATTGGATTGAAAAAATAACTGGTGTCATCGCTTCTTTGCTGAGCTCCCAATCGCCCGAACGG

upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 13
gttatttaatgtgttctttagatttttttaattcatacatggatggtgattaaagctttatagtttcattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
  |||  | |    | || |   |  | |  |    |  | ||   | |||  |  |||    ||| | |       | |  || |    |||||||||||||||| | || |||||||| ||||||||||| || |||||||| ||||| || || || || || |||   || |||  |
-gtatg-agtacaatattgaagatgatattgtcttcatgtcgaatataattcgatatttcctatttaagtgacaccatctattttttga-gcagGCAGAGAGTGCAATAGATCAAATGGATTGGATTGAAAAGATTACTGGTGTCATTGCATCTTTGCTTAGCTCACAATCCCCAGAACAG

upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM5G872204_T02 (Zea mays), 3'ss of exon 13
gttatttaatgtgttctttagatttttttaattcat-acatggatggtgattaaagctttatagtttcattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
            ||     | |  ||| |  |   | | || ||   |||| ||  |||      |||||      ||  ||||  | | | ||||||||||||||| | || || ||||||||||||||||| || |||||||||||||| || |||||||| || |||   || |||  |
------------gtatagcacaagtttatggtctgtcatattgaatatgatcaagacttccatacttcatgaacatatc-tgctattta-tacagGCAGAGAGTGCAGTAGATCAGATGGACTGGATTGAAAAGATAACTGGTGTTATTGCCTCTTTACTGAGCTCACAATCGCCAGAACAG

upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G059225_T02 (Zea mays), 3'ss of exon 13
---------------------gttatttaatgtgttctttagatttttttaattcatacatggatggtgattaaagct--ttatagt-ttcattcct---taattatgcttgtcag------tgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
                     |||  |   ||| ||||||| |     | |  | |||    | || | | || |  |  || |  | || ||| ||   || | |||    |  |      ||||||||||||||||| |||| || ||||| |||||||||||||| || || || |||||||| || ||||| || ||   ||||||| | 
gtatgaagcttaaatgcatatgttgatatctgt-ttctttatacaggatgatgttatatgaagctgttcaatagacatacttgtgatattgatttctgtctagtgatgtgcattggaaattgtgcagGCAGAGAGTGCAATGGATCAGATGGATTGGATTGAAAAAATTACCGGCGTCATTGCTTCTTTGCTGAGCTCCCAGTCTCCTGAACGA

upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G093670_T01 (Zea mays), 3'ss of exon 4
gttatttaatgtgttctttagatttttttaattcatacatggatggtgattaaagctttatagtttcattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
  ||    |  ||||  |       | |   ||     || |||  |||||||   || |    | |||      ||  ||||  | | ||||||||||||||||| | || || ||||| ||||||||||| || ||||||||||||||  | || ||||  || |||   || |||  |
-gtacaccacatgtttatggtgcagtctgcctt-----attgattctgattaagatttcaatactccatgaacacatc-tgctattta-tgcagGCAGAGAGTGCAGTAGATCAGATGGATTGGATTGAAAAGATAACTGGTGTTATTGCCCCTTTGCTGAACTCACAATCCCCAGAACAG

upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
lower sequence: AT5G13300.1 (Arabidopsis thaliana), 3'ss of exon 13
--gttatttaatgtgttctttagatttttttaattca--tacatggatggtgattaaagctttatagttt-----cattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
   | ||| |  |||||  |||     ||  || |    |  ||  ||| |     ||| || |||||||     || |  ||| ||||| |||||||||||||| ||||||||||| || |||||||| ||||| ||||| |||||||| |||||||| ||| |||| ||||||||  | ||||||  |
gtttgattcagagtgtttgttactgccttaaaactttattgtatacatgtttgcccaagtttaatagttttcactcagtgtttacttatgtttgtcagtgcagGCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAG

upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
----------------------------------------------------------------------------------------gttatttaatgtgttctttagatttttttaattcatacatggatggtgattaaagcttta-tagt-----ttcattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
                                                                                        ||| | | |  |  |  |   ||  |      | |    |   |  |||||      | | ||||     || ||    ||  | ||||||||||  ||||||||||||||||||||||||||||| ||||||||||| || || || ||||||||||||||||||||||||||   |||||| |||
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggatggtgattaaagctttatagtttcattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
                               ccttaat  putative branch site (score: 4)
         attaaagctttata  TA-rich tract