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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG

Basic information

species Glycine max
transcript GLYMA02G08690.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g07709.1 (Oryza sativa), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttt-tatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttt-tgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                                  ||| | ||||  | ||      |           | | | | ||||     ||  |  | ||||  |     |   || ||  |  || ||||| ||| | |||   ||||||||||||||||| |||||| |||||||||| ||||| ||||||||||||||||| |||||||| |||||||| ||||| |
------------------------------------------------gtaagctccgttcctctcccgcatctcccctttgcagtggtctctttgcgcaggtgctaaggggaggaatcgcgtgtgtgtttgatttttgcagTCGCTGATCGCGGGGGAGGATTTCCAGCACATCCTGCGTCTGCTGAACACGAACGTGGATGGGAAGCAGAAGATCATGTTCGCGCTCACCTCCATCAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g58050.1 (Oryza sativa), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttg--cttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                     ||   |    |       || | |  ||  ||  |   | | |   ||  || |  || | |    | ||   || || | ||      | || ||  |   ||||| ||| | ||    ||||| ||||||||||| |||||| |||||||||||||||| ||||||||||||||||| |||||||| |||||||| ||||| |
-----------------------------------gtaaccttctcgctcgcttctcctctcctccattcccgtctccgattcgcc-ttctcgtgacgcctcctctgactgactctcgtt---ggcgcttctgtccccgcagTCGCTGATCGCCGGGGAGGACTTCCAGCACATCCTGCGTCTGCTGAACACCAACGTCGATGGGAAGCAGAAGATCATGTTCGCGCTCACCTCCATCAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G178341_T02 (Zea mays), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                        |   | ||  |   ||  |  |  |    | |  | ||     ||   | |||| |    || ||  ||    |  | |     | |  | |     ||||| ||| | ||   |||||| ||||| || ||||||||| |||||||||||||||| ||||||||||||||||| ||||||||  | ||||| || || |
----------------------------------------gtaacctcctacacttattcctccccgccgac--tctcgttgtgcagatgtttttgtatcgtgttctga----ttccgt----gacgactgttgccgcagTCGCTGATCGCCGGCGAGGACTTCCAACATATTCTGCGTCTGCTGAACACCAACGTGGATGGGAAGCAGAAGATCATGTTCGCCATGACCTCCATAAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G130544_T02 (Zea mays), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                      ||  |||| ||     |||     ||   ||  |  | |  | |    |||||| | | |    |  ||     || || | |          ||    ||||| ||| | ||    ||||| |||||||| || |||||| |||||||||||||||| ||||||||||||||||| ||||||||  | ||||| ||||| |
------------------------------------gtaaccttctccactcacttctccccattgcttctcggtgtgcagat---atttttatagtt----tcctgactccgtgacgtctg---------tggccgcagTCGCTGATCGCCGGGGAGGACTTCCAGCATATCCTGCGTTTGCTGAACACCAACGTGGATGGGAAGCAGAAGATCATGTTCGCCATGACCTCAATCAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G062911_T01 (Zea mays), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatc---ttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                                || || | |    || |   ||||| ||         |||||||  | || | | |   ||||        ||||      || |||||    |||| ||| | |||   ||||| || |||||||| |||||| |||| ||||||||||| ||||| ||||||||||| ||||| || |||||||| ||||| |
----------------------------------------------gtaagagctcctccctaccccattttgtcatcacgggtcggcgattagtctgacac-gcggttgg--------catt------ggctttgc----agTCGCTGATTGCGGGGGAGGACTTTCAGCACATCCTGCGTTTGCTTAACACCAACGTGGATGGCAAGCAGAAGATCATGTTTGCCCTCACCTCCATCAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G09800.1 (Arabidopsis thaliana), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                     || |      | |   | | | |  || ||   ||  |||          ||| | ||    |  |  |||   | |   |||||   | |||     |  |||||||||| || || ||||| || || |||||||| |||||| |||| || || || ||||| ||||||||||| ||||| || || |||||||||||||
-------------------------------------aatgtaatcgcgagtaagttgataaatttt---gcgttttttttgtttagtttatgtgaaattactgatgggttaattgaattttgtgttgttgattgtgtagTCTCTGGTTGCAAATGAGGAGTTTCAACACATTCTTCGTGTGTTGAATACTAATGTTGATGGTAAGCAGAAGATTATGTTTGCCCTTACCTCTATCAAAG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G34030.1 (Arabidopsis thaliana), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                           |  || || |||  ||    || ||  ||    |||| | |||   |||     |||  ||||||   | |  | | |   |   ||   |||||   || |  ||| |  |||||||||| || || ||||| || ||||||||| |||||||||| ||||| ||||| ||||| ||||| ||||| ||||| || || |||||||||||||
--------------------------atcagagaaccaagtatcgaacagaaagtttaggttatgtgttg---att-----agggaatttttgatgtttggctgt---aattgtgtgatttt---tgttactgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACTAACGTTGATGGTAAGCAAAAGATTATGTTTGCCCTTACCTCTATCAAAG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G22780.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------gtacgattt--cagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttgg----caatttcaaaaggcg-----atttttttg---gctctgtttttggaggagtcacatttt-------aaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                         ||  | ||   ||     ||    || ||||||   | |     || ||||      | |||||    || |      ||  ||||| |        |||   ||    | | ||    ||  |||      ||||         ||   | ||  |  ||||||| || ||||||||||| || ||||| |||||||||||||| || || || || ||||||||||| || || ||||| ||| | ||||| ||||| |
gtacgattatcgttcttcaactcttgtctggttctccaattgctcgtgcttcattttgcgtatcgctcgtttttcattg--ctggttttgggattggagttttaagctcaaatgttttttgtattcccttacacgatttgcgactgacggatctgttttttttttttcgtattcgtgtgtgtgtagTCTCTAGTTGCGAACGAGGAGTTTCAGCATATTCTGCGTGTGCTCAATACTAATGTCGATGGGAAGCAAAAAATTATGTTTGCTTTGACCTCAATCAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0072g00060.t01 (Vitis vinifera), 3'ss of exon 2
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG-------------------
                                ||| ||  | |||      |   || | |  |  ||      |||  || | | ||  |||    |  |||| |       |||   |||   ||| |     ||||||| || ||||||||||| || |||||||||||  ||||||| |||||||| ||||| |||||||| |||||||||||||| || ||||| || ||||| |                   
-------------------------------gtaatcagggtttc------aatctcttctcgttcttcc----tttagaatgcctataatttaatgtacgtttgt-------tcaatctttcgttgggt-----tacagtcgctagtggcgaacgaagAATTCCAGCACATATTGCGTGTCCTGAACACGAACGTGGATGGGAAACAGAAGATAATGTTTGCCCTCACGTCAATCAAGGGTATTGGGAGGCGATTCGC

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S242_94V6.1 (Physcomitrella patens), 3'ss of exon 1
gtacgatttcagcgtttcc-----gaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
|| ||  |||| || ||||          | ||| |   |        | | |  | |||  | ||  | ||||      ||| ||| |    || |     |||    || | | |        | |||     |||   |||||| ||  | |||  |||||| || ||||||||||| |||||||||||||| ||||| |||||    |||||||| ||||| || || || || || || |
gtgcgtgttcatcgcttcctccccatgcagctttcgtcgactcgtttctttgcgtacgatgagattgttatttttttttcttccaaatg----ttgtacacttctagggttcgtgcatctgtgactgaaagctggttgtgaacagTCGCTCATTGCGGGCGAGGAATTTCAGCACATTCTTCGTGTGCTGAACACTAACGTCGATGGACGTCAGAAGATCATGTTTGCCCTGACTTCGATTAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 1
----gtacgattt-cagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
    ||  ||| | |  |||    |   |  |  || |   |   | |  |    |    |   ||  | ||   | ||||| |      |  |||   | || |||   || | |       | |    |     || |  ||||| ||  | |||  |||||| |||||||||||||| ||||| ||||| |||||||| ||||||   |||||||| ||||| || || ||||| ||||| |
gtgtgtctgatctgcctcgtccttgtcattgtgctgctcttcttggctcttattcagtgctatcttcgtgttcgtgaaattttatgtttagggtttac-gtctttgtgactgaaagttggttgtgtgtgtttccgatgttggcagTCGCTCATTGCGGGCGAGGAGTTCCAGCACATTCTTCGTGTTCTGAATACCAACGTCGATGGGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGG

upper sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ22352 (Selaginella moellendorffii), 3'ss of exon 1
gtacgatttcagcgtttccgaattgattttgataaacaaagattcttcaaaagattcgttttatcttttggcaatttcaaaaggcgatttttttggctctgtttttggaggagtcacattttaaatggttttgctt--acagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                                                                     |||| || ||  |  | | ||| |  | ||     |     |  | || ||   ||||||||||||   || ||||| |||||||||||||| |||||||| ||||| || || || |||  ||||||||| |||||||| || || || ||||| |
---------------------------------------------------------------------------------gtatgattcttgtg--ttgggtgttgaaataatc----ctccggcgcctctgttttggcagTCTCTGGTGAGCAATGAGGAGTTCCAGCACATTCTTCGTGTGCTCAACACGAATGTGGACGGGCGGCAGAAGATTATGTTCGCGCTGACTTCCATCAAGG

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|298198069|gb|HO039608.1|HO039608
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|192305187|gb|FG993953.1|FG993953
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|298177533|gb|HO027200.1|HO027200
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|298193318|gb|HO033752.1|HO033752
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|192334314|gb|FK024413.1|FK024413
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|192305202|gb|FG993954.1|FG993954
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|298190114|gb|HO032235.1|HO032235
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|298179933|gb|HO025148.1|HO025148
EST:     AAGAGCAGGAGCTTCGGTGGCGATCTTCACCCGCCTCGGTGNNNNNNNTG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: AAGAGCAGGAGCTTCGGTGGCGATCTTCATCCGCCTCGGTGAAAAAAATGgtacgatttc ... ttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttttttggctctgtttttggaggagtcacattttaaatggttttgcttacagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTAGATGGGAAGCAGAAGATAATGTTCGCTCTCACCTCTATCAAAG
                                           ttttgctt  CT-rich tract
                                attttaaatggtttt  TA-rich tract