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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCAAGTTGAGGAACGACTTGACTTTTATGACAAGGGAGTTGCCCCTCGCAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatgaagagatccccttttatggctttccccaaaacatgaaagatataaatttggttgtgaatgtaaatgaacttatattggccattatatgttg...

Basic information

species Glycine max
transcript GLYMA05G03150.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G03150.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G56110.1 (Arabidopsis thaliana), 5'ss of exon 7
---GAGCAAGTTGAGGAACGACTTGACTTTTATGACAAGGGAGTTGCCCCTCGCAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatgaagagatccccttttatggctttccccaaaaca---tgaaagatataaatttggttgtgaatgtaaatgaacttatattggccattatatgttg
   || |||||||||||| | || || ||||||||||| || |||||||| ||||||||| | ||||| ||| |||  |  || || | |     |||  ||||||    |    || |    |||| ||| | |   || |      |  | |||   ||  |   |||   | ||  ||  | |   || |             
CGCGAACAAGTTGAGGAAAGGCTAGAATTTTATGACAAAGGTGTTGCCCCACGCAAGAACGTGGATGTAATGAAGGAGGTGATAGAGAATCT---AAAGCAAGgtatttcttgt-agctgtttttttttggttgtaatcagagtcctctttatgatggcaaactcagtgtttttttatctgttcctcctttag-------------

upper sequence: GLYMA05G03150.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G12860.1 (Arabidopsis thaliana), 5'ss of exon 7
GAGCAAGTTGAGGAACGACTTGACTTTTATGACAAGGGAGTTGCCCCTCGCAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatgaagagatccccttttatggctttccccaaaacatgaaagatataaatttggttgtgaatgtaaatgaacttatattggccattatatgttg
|| ||||| |||||| ||||||||||||||||||| || |||||||| || |||||  | ||||| ||| | |  |   | |||| |  ||| || |||||||   ||||    |      | | ||   |           ||    | |    |||| |||      |   |   ||| | ||               
GAACAAGTAGAGGAAAGACTTGACTTTTATGACAAAGGTGTTGCCCCACGTAAGAATGTTGATGTAATGAAAGAAGTGTTGGAAAATCTTGAGAAGAAAGgtacatatgacccaacaaagctctctgatctgt---------tgtggtaaacggttttgtttgatgggttgtttcttctttttttaag------------

upper sequence: GLYMA05G03150.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 7
GAGCAAGTTGAGGAACGACTTGACTTTTATGACAAGGGAGTTGCCCCTCGCAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtaggg-atgaagagatccccttttatggctttccccaaaacatgaaagatataaatttggttgtgaatgtaaatgaa-cttatattggccattatatgttg
|| ||||||||||| ||||| || ||||||||||||||| |||| ||||| || ||||| ||||| ||| | ||||| ||||||| | || ||||||| |||  |  ||  |  ||     |  ||  | | |    || |  | ||   |  |   |    | | | | |     || | | ||||     || |  |  |
GAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGTTATGAAAGCTGCCATTGAAATTACTCAAAACAATGgtgagctatatatggaaaagatcatagtgatatttttaatatttcaatacttgatgctgaactatcagtatttccaaaacatctatt--ttgttgtgggggg

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|207838456|gb|GD811994.1|GD811994
EST:     CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAG                         ATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA
genomic: CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatga ... tttgttgcagATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA
EST: gi|208324762|gb|GE122774.1|GE122774
EST:     CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAG                         ATACAGAGATGGAAA
genomic: CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatga ... tttgttgcagATACAGAGATGGAAA
EST: gi|193304478|gb|FK269541.1|FK269541
EST:     CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAG                         ATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA
genomic: CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatga ... tttgttgcagATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA
EST: gi|23730685|gb|BU763438.1|BU763438
EST:     CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAG                         ATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA
genomic: CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatga ... tttgttgcagATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA
EST: gi|207765574|gb|GD736379.1|GD736379
EST:     CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAG                         ATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA
genomic: CAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatga ... tttgttgcagATACAGAGATGGAAACAGAAGCACCTGCCGAAGTTTCAGGCAAGAAAACCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGCAAGTTGAGGAACGACTTGACTTTTATGACAAGGGAGTTGCCCCTCGCAAGAACATAGATGTCATGCAGGCTGCTATTGAAAGTGCTGAAAACAAAGgtagggatgaagagatccccttttatggctttccccaaaacatgaaagatataaatttggttgtgaatgtaaatgaacttatattggccattatatgttg

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcccc