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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA

Basic information

species Glycine max
transcript GLYMA15G18170.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
----------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                      ||  |  | |||||||   |  | ||    |  ||| ||||         |   |   | || |      |    || |||||||| ||||||||||||||  | |||||||||||||||||||||||||||||  | |||||||| |||||  || | ||| |||||    | || || 
attttaatttgaattgtctagggtctgaaatagttcaagccc-ctaatgactagagttgattattgatcttcttactag-attagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 3'ss of exon 5
-------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccact-tcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                    ||  |           || ||   |  | ||  || ||   || |      |     | ||  | |          |||||||||| ||  |||||||||| || |||||||||||||||||||| || |||||  | ||||||||||| ||| || |     |||||    | ||||| 
gggttctcatagtgactttatagcttttgagcttgttagatacttggttatttttaatgttctacctggctgaatcaagtaccttctctggtgtgatcagGTACCCAAACCTGAAGAGTGTCAGGGAATTGATCTACAAGAGGGGTTACGGAAAGCTCAACAAGCAGAGGATTCCTCTTCAGAACAACAAAGTCATTGAG

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G094051_T03 (Zea mays), 3'ss of exon 5
-------------------gtaagtgaaagttcaactacat-tgattctcatggttcat-tacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                   ||   || |       || ||| | |   |  ||  |||| | | |         ||  ||| | | |||||||   || |||||||| || ||||||||||| || || ||||||||||||||||||||||||||  | ||||||||||| ||  || || |  |||||    | || || 
aaaaaacataaagcagacagtgcctggagtagttcctgcatcttagcttggtgactcatctgcttctgatgaccttactaa-agtggcaaatcttgtttagGTACCCAAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAAGCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 5
--------------gtaagtgaaagttcaactacattgattctcatggttcattacctgca-----ccatggttct-taatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
               || | ||   |  |  ||  |      || | | |   |  || ||      ||||    |   | | |   | |||   || |||||||| || ||||||||||| || || |||||||||||||||||||| |||||| | ||||||||||| ||  || || |  |||||    | || || 
aaaacattgctacaataggagagtctggaggtagttactgcatctttgcttggtgactccagcttctcatgaccttgctaaactgatatatcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGGAAAACTGAACAAGCAGAGGATCCCTCTGTCTAACAACCAAGTCATCGAG

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G344279_T01 (Zea mays), 3'ss of exon 5
---------------------gtaagtgaaagttcaactacattgattctcatggttcat-tacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                     ||  |    |||||    |  ||   | |  ||  |||| | | | |       ||  |||  |  |||||||   || |||||||| || ||||| ||||| || || ||||||||||||||||||||||||||  | ||||||||||| ||  || || |  |||||    | || || 
gaaaaaagcataaagcatactgtctggagtagttcctgcatcttagct-tggtgactcatctgcttccgatgaccttactaacgtg-gcaaatcttgtttagGTACCCAAACTTGAACAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAATCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G178807_T03 (Zea mays), 3'ss of exon 4
---------------gtaagtgaaagttcaactacattgattctcatggttcattacctgca---ccatggttcttaatatttgcaaatc--cacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
               ||      || ||  |   ||   ||||   | ||| || |     |   |||      | || || | |   ||  | || ||| ||||| ||  ||||||||||||| |||||||||||||| || || ||||| ||  | ||||||||||| ||| |  | |   |||||  | | || || 
gcaccaaatccctgagttctgataattttcaaaccagaaattccacttgtttatcattatgatgtccagaagcatgaacatctacctttcatctctccagATACCCGAACCTGAAGAGTGTTAGGGAATTGATCTACAAAAGAGGTTATGGGAAGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAG

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagtgaaagttcaactacattgattctcatggttcattacct----gcaccatggttcttaatatttgcaaatccact----------tcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
||| ||  |    |    |   | |  |   |  |    | |        | || |  |||| |    ||  | |   ||          |||| | |||||| ||||||||||| |  ||||||||||||||||| || || |||||  ||||| | ||||| || |||||||| |||||||||||| | || 
gtatgtatatacactctcatcctaaaccctttaatctgatgctatgagataacaagagtcttgaagagtgtgacttttctcttctgtttttcagATTCCCTAACTTGAAGAGTGTCAAGGAATTGATCTACAAGAGAGGTTACGGAAAGCTTAACCACCAGAGGATAGCTTTGACTGACAACTCTATTGTAGAG

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
----gtaagtgaaagttcaactacattga----ttctcatggttcattacctgcaccatg---gttcttaatatttgcaaatcc-----acttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
    |||  | |   ||    |   || |     | | |    ||   || || |   |     ||  |||| | |  | ||       | || |||||||| ||||||||||||||  |||||||||| ||||||||||| || |||||  | ||||||||||||| ||| ||||| |||||||| ||| | |||
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
---------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                      |   | ||| | | |  | |     |    | ||  ||||       |     | || ||||| ||||||  | || |||||||| ||||||||||||||  ||||| |||| ||||||||||||||||||||  | ||||||||||||| ||| ||||| |||||||| ||| | |||
gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatgtatttatatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00090.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                        |   | ||  | | |  | |     |    | ||  ||||       |     | || ||||| ||||||  | || |||||||| ||||||||||||||  ||||| |||| ||||||||||||||||||||  | ||||||||||||| ||| ||||| |||||||| ||| | |||
gggtaagtatcttactcttttgtttttcttaagatcctataaaaagttctgaacttgtatattattcatttctaatgtatttatatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0052g00290.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtg----aaagttcaactacattgattctcatggttcat-----tacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
||| |||     |    ||||| |||  |   ||| || ||||      || ||||   || || || ||||    ||      |||||||| || ||||| |||||||| || ||| |||| ||||||||||| ||||||||| ||||||||||||||| |||| |||| || ||||| || ||||||
gtatgtgttctgactgccaacttcat-aaccttcagggatcatatctccacatgcaatctg-ttattcatatactgaagattgtttcagGTATCCCAATTTAAAGAGTGTCAGGGAACTGATTTACAAGAGGGGTTATGGAAAACTTAACAAGCAGAGAACTGCTCTGACTGATAACTCAATCATTGAA

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00060.t01 (Vitis vinifera), 3'ss of exon 4
---------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                      |   | ||| | | | || |  |  |    | ||  | ||       |     | || ||||| ||||||  | || |||||||| ||||||||||||||  |||||||||| ||||||||||| ||  ||||  | ||||||| ||||| ||| ||||| |||||||| ||| | |||
gtaagtatctcacccttttgtttttcttaaaatccta-taaaaagtctaaacttgtatagtattcatttctaatgtatttatatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGTGAGAATTGATTTACAAGAGGGGGTACAGAAAGTTGAACAAGCTGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
---------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                      |   | ||| | | | || |  |  |    | ||  ||||       |     | || ||||| ||||||  | || |||||||| ||||||||||||||  |||||||||| ||||||||||| ||||||||  | ||||||||||||| ||| ||||| |||||||| ||| | |||
gtaagtatctcactcttttgtttttcttaaaatccta-taaaaagtctaaacttgtatattattcatttctaatgtatttatatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S2_667V6.2 (Physcomitrella patens), 3'ss of exon 3
----------------------------------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccactt-cagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                                              | ||| |    ||   || |   || |      |    | |  || | || |  |        || ||| |   ||| ||||||||||||||||||||||||| | ||||||||||| ||| | ||  | || || |||  ||||    |  | ||  | || |||||  | ||||| || 
gtaggcagcgaatggcgtaaaactgagttttggagaatttcattttgaaagaggtgttttgccttccccgacttgttctggatttgaattg-atcacgagttcg---gctttcaattgtgcttgcagGTACCCTAATTTGAAGAGTGTTCGTGAATTGATCTATAAGCGTGGGCACGGTAAGGTTGTCAAGTCACGTGTCGCCCTTACTGACAATACCATTATCGAG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|8282865|gb|BE020426.1|BE020426
EST:     AAAGCTACAGTGAATATGCTCCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTTAGGAGAATTGATCTACAAGAGGGGCTATG
genomic: AAAGCTACAGTGAATATGCTCCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTTAG-AGAATTGATCTACAAGAGGGGCTATG
EST: gi|17023603|gb|BM094637.1|BM094637
EST:     AAAGCTACAGTGAATATGCTCCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACAGTGAATATGCTCCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|298195246|gb|HO043774.1|HO043774
EST:     AAAGCTACAGTGAATATGCTCCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACAGTGAATATGCTCCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA
                             tcttaat  putative branch site (score: 3)
                                             tccacttc  putative PPT
                               ttaatatttgcaaat  TA-rich tract