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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG

Basic information

species Glycine max
transcript GLYMA10G02400.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gtattaatgttgtaagttacttttttttgtg-gtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG----------------
    || | |  ||| | | |  | || ||   ||  |||  || |    ||  |  |   |||| ||   ||    ||     ||||||||||||||||||||||||| ||| |||||||| ||||| || || |||||||||||||||||||||||||| || || |||                
---gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccatt-accacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gtattaatgttgtaagttacttttttttgtg-gtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
    || | |  ||| | | |  | || ||   ||  |||  || |    ||  |  |   |||| ||   ||    ||     ||||||||||||||||||||||||| ||| |||||||| ||||| || || |||||||||||||||||||||||||| || || |||
---gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccatt-accacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gtattaatgttgta-agttacttttttttgtggtgtattt---ccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
||| |    || || || ||       ||   |  | ||     |||| || || |  |  |     | || || || ||       ||||||||||| || || ||||| |||||||||||||| ||||| || || |||||||||||||| ||||| |||||||| || |||
gtactccctttatagagctatgcagagttccagattgttcacatcttgaatactccttttgctg---atatctgattctg------acagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 22
gtattaatgt-tgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttg-ttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
|||| |  |  |  || ||     ||  || ||||||     |  ||||      | | |||  ||||   ||||| | |  || ||||||||||| ||||||||||| ||||| |||||||| || ||  |||| || ||||| |||||||| ||||| ||  |||| |||
gtatgatggcatccaaattttgcattaatgaggtgtacagtgtactatgtgattctca-aagctaaatgctgttttttctactttcagTGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G042074_T01 (Zea mays), 3'ss of exon 22
----gtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
     ||| |||     |||   || |||||||    | | ||   | | ||| | | |  ||   |||  |      | |||  | |||||| ||||||||||||| || |  || |||||||| ||||| || || || ||||||||||||||||| |||||||| ||||||
gtacttatcaattggacaagcctctgttttttg----gcagttgagtatctgcatta-tagcatctaaataac----ctattt--tccagTGGCTTGGTGAAGGAGAAAAATTCGTGAAAGCTGTTTTTTCACTGGCAAGTAAAATTGCTCCAAGTGTAATTTTTGTGGACGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgt--ttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
||| |  ||        ||||  |     | ||        | |  | ||| | |     |   | |       |||   | |  ||||||||||| || ||||| || ||||| |||||||| ||||| || || ||||||||| |||| ||||||||||| || || |||
gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtactt-attactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
gtattaatgttgtaagttacttttttttgtggtgtatttccttg-tatgcttcagtgacaagaaaaat--atggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                ||| ||    |  |||   | |     | |   || | ||  ||||   ||    ||||||  |   || ||||||||||||||||| ||||||||||| || ||||| || || ||||| || ||||| || || |||||||| ||| |||| |||
-------------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G354532_T01 (Zea mays), 3'ss of exon 1
gtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaa-aatatggttttgtttgttgc-agTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                              |   ||||||     |||    | |||  |||   | ||  || |      |  | |||||||||||||||| ||||||||||| || ||||| || || ||||| || ||||| || || |||||||| ||| |||| |||
------------------------------gtattatttcacctaatgggcaactgatgagattcactactgtctcaagGCTAACCAGTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 13
gtattaatgttgtaagttacttttttttgtggtgtatttccttg-tatgcttcagtgacaagaaaaat--atggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                ||| ||    | | ||   | |     | |   |||  ||  ||||   ||    |||||   ||  || ||||||||||||||||| ||||||||||| || ||||| || || ||||| || ||||| || || |||||||| ||| | || |||
-------------gtattatttgacctagcgggcaactgatgagattcacttgtgtctcaagcctaaccagtggttcgtttactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 2
gtattaatgttgtaagttacttttttttgtggtgtatttccttg-tatgcttcagtgacaagaaaaat--atggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                ||| ||    |  |||   | |     | |   || | ||  ||||   ||    ||||||  |   || ||||||||||||||||| ||||||||||| || | ||| || || ||||| || ||||| || || |||||||| ||| |||| |||
-------------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGTTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G170037_T01 (Zea mays), 3'ss of exon 4
gtattaatgttgtaagttacttttttttgtggtgtatttccttg-tatgcttcagtgacaagaaaaat--atggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTAT-TTTTGTTGACGAG---------------
                ||| ||    |  |||   | |     | |   || | ||  ||||   ||    ||||||  |   || ||||||||||||||||| ||||||||||| || ||| | || || ||||| || ||||| || || |||||||| |||| |||| |||               
-------------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTATTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTTATTGATGAGGTATGCAAGCACACA

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattaatgttgtaa----gttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
||||| ||    |||    ||||| |   | | | |||| |||| |||          ||||  || |            |||  || ||||||||||||| ||||||||||| || |||||||| || ||| |||| || || || |||||||| || ||||||||||| |||
gtattgatcacttaaaacggttacctgactctatagtgt-tttctttgagattagacttgacttgaga------------tttcgtgtagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattaatgttgtaa-gttacttttttttgtggtgtatttccttgta-tgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
   | | | |  ||| || |  |  |||  |  | |  || ||| || || ||  || ||  ||  | |     |   |   ||||||||||||||||| ||||||||||| || ||||||||||| ||  |||| ||||| ||||| |||||||| ||||||||||| |||
--gtaactctcataaagtgatatgatttccttttatgctttcttttaatgatt--gt-acttgaccatttacactaaatgctttgcagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTCTTCTCCTTAGCGAGCAAGATTGCGCCAAGTGTCATTTTTGTTGATGAG

upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
gtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaa---aatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
|||   |||| | |    | |  |   | ||  |   |   ||| | |  |   |   || | |    | ||  |  | ||  |||||||||||||| ||||||||||| |||||||||||||| || |||||||| || |||||||| || |||||| ||||||||||||||
gtaaatatgt-gcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG

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|16279552|gb|BI943495.1|BI943495
EST:     AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAG                         TGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
genomic: AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgt ... tttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
EST: gi|192316675|gb|FK009360.1|FK009360
EST:     AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAG                         TGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
genomic: AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgt ... tttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
EST: gi|19347186|gb|BM892066.1|BM892066
EST:     AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAG                         TGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
genomic: AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgt ... tttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
EST: gi|37994806|gb|CF806395.1|CF806395
EST:     AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAG                         TGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
genomic: AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgt ... tttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
EST: gi|20811998|gb|BQ296476.1|BQ296476
EST:     AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAG                         TGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC
genomic: AAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgt ... tttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                                        ttttgttt  CT-rich tract
                              aaaaatatggtttt  TA-rich tract