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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAGTGGTGAATGGTGGAGATCCTCGCCTTCGGGGATGTATTGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttatgttatagggtatcttttattttgtaaatgcaaattttgcttgcttgcattttgttgaactaatttttatgtcgttcacacttgcattattaaattggtatattccttgtctatgctttgtgcatgcaatatcttgcag

Basic information

species Glycine max
transcript GLYMA10G24340.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G24340.1 (Glycine max), 5'ss of exon 2
lower sequence: AT2G38710.2 (Arabidopsis thaliana), 5'ss of exon 2
AGAAAGTGGTGAATGGTGGAGATCCTCGCCTTCGGGGATGTATTGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttatgttatagggtatcttttattttgtaaatgcaaattttgcttgcttg--cattttgttgaactaatttttatgtcgttcacacttgcattattaaattggtatattccttgtctatgctttgtgcatgcaatatcttgcag
||||| | |||||||||||||| |||||  | || ||||||||||| || |||||||||||| ||||||||| |||  |||| ||||||||  |||| ||||  ||    ||  |     |  |||| |||| | | | |  || ||  || ||||  ||| ||  |||  |  ||||  | |  ||  |  ||   | ||                                                 
AGAAAATAGTGAATGGTGGAGAGCCTCGGTTGCGTGGATGTATTGGTACACTGGAAGCACGCCGCTTGATCAGTGGCTTCAAGGATTATGCCTTGACAAGgtacgtactcgtcctcattcagttttttttttctga-ttctcatattattttcttggccatattcatgatgtgcttttcgtctgctttgcttttttttcat-------------------------------------------------

upper sequence: GLYMA10G24340.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 2
AGAAAGTGGTGAATGGTGGAGATCCTCGCCTTCGGGGATGTATTGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttatgtta--tagggtat-cttttattttgtaaatgcaaattttgct-tg--cttgcattttgttgaactaatttttatgtcgttcacacttgcattattaaattggtatattccttgtctatgctttgtgcatgcaatatcttgcag
||||||| ||||||||||| || |||||  | || ||||||||||||||||| ||||| ||  |||||||||||||  | || || |||||  | ||||||| |  ||     |  || | ||  | |||||||  | | |  |  | ||||| ||   ||| || |   |   |       | ||||    || |                                                          
AGAAAGTAGTGAATGGTGGGGAACCTCGTTTGCGTGGATGTATTGGAACTCTTGAAGCTCGTTGCTTGATCAATGGCTTTAAGGACTATGCTTTAACCAGgtattattgcaacacatatgctaggcatttatttacttattctatgtcttgctgtggttttgaatctctctctccctccccatctgtcccctacgccaaa------------------------------------------------------

upper sequence: GLYMA10G24340.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ07623 (Selaginella moellendorffii), 5'ss of exon 2
AGAAAGTGGTGAATGGTGGAGATCCTCGCCTTCGGGGATGTATTGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgt------------ttgttta-tgttatag-----------ggtatcttttattt-----tgtaaatgcaaattttgcttgcttgcattttgttg--aactaatttttatgtcgttcacacttgcattattaaattggtatattccttgtctatgctttgtgcatgcaatatcttgcag
||||||| |||||||||||||| |||||| | || ||||| || || || |||||||| ||| ||||||||| |||  |||| ||||| ||  |||||||||            ||| ||   || | ||           || | | ||| |||     | ||| || |    || |||||| ||   |  |||  | |  | |||   | ||   | |  || |  |   || ||| |   |  |   || | || |    |||    |        
AGAAAGTTGTGAATGGTGGAGAGCCTCGCTTGCGAGGATGCATCGGGACGCTGGAAGCTCGCTGCTTGATCACTGGCTTCAAGGATTACGCATTGACCAGgtgcgctcttttggttgcttggcgtgaaagagccttgtcatggcaccatttgtttatggttttaagtggatgccttccttgctagctagtgtttggtagccgagtttcgag-cgaaaagatgtgaaaaaaataagtggaaggatgttgacctcttctctacctatgtttcag-------

upper sequence: GLYMA10G24340.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ11024 (Selaginella moellendorffii), 5'ss of exon 2
AGAAAGTGGTGAATGGTGGAGATCCTCGCCTTCGGGGATGTATTGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgt------------ttgttta-tgttatagggt-----------atcttttattt-----tgtaaatgcaaattttgcttgcttgcattttgttg--aactaatttttatgtcgttcacacttgcattattaaattggtatattccttgtctatgctttgtgcatgcaatatcttgcag
||||||| |||||||||||||| |||||| | || ||||| || || || |||||||| ||| ||||||||| |||  |||| ||||| ||  |||||||||            ||| ||   || | || ||           | ||||| |||     | ||| || |    || |||||| ||   |  |||  | |  | |||   | ||   | |  || |  |   || ||| |   |  |   || | || |    |||    |        
AGAAAGTTGTGAATGGTGGAGAGCCTCGCTTGCGAGGATGCATCGGGACGCTGGAAGCTCGCTGCTTGATCACTGGCTTCAAGGATTACGCATTGACCAGgtgcgctcttttggttgcttggcgtgaaagagtcttgtcatggcaccttttgtttatggttttaagtggatgccttccttgctagctagtgtttggtagccgagtttcgag-cgaaaagatgtgaaaaaaataagtggaaggatgttgacctcttctctacctatgtttcag-------

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|209696594|gb|BW666916.1|BW666916
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|193322244|gb|FK284980.1|FK284980
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTTCCACCCATACAAGTTAATGAGCTTCCGC
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTT-CCACCCATACAAGTTAATGAGCTTCCGC
EST: gi|8285420|gb|BE022979.1|BE022979
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|298165887|gb|HO008858.1|HO008858
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|192303251|gb|FG995587.1|FG995587
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|209721129|gb|BW659167.1|BW659167
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|298177643|gb|HO027310.1|HO027310
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|298194018|gb|HO040666.1|HO040666
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|192302476|gb|FG996254.1|FG996254
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|151397948|gb|EV267821.1|EV267821
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|58017309|gb|CX704051.1|CX704051
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|192319095|gb|FK010631.1|FK010631
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|11274924|gb|BF325249.1|BF325249
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|192313351|gb|FK005123.1|FK005123
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|298197776|gb|HO039315.1|HO039315
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTCCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|151395355|gb|EV265226.1|EV265226
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|192294004|gb|FG987173.1|FG987173
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGGGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|209721128|gb|BW659166.1|BW659166
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|163927119|gb|EH038550.1|EH038550
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|151395434|gb|EV265311.1|EV265311
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|192313350|gb|FK005122.1|FK005122
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|48575279|gb|CO036324.1|CO036324
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|151398285|gb|EV267869.1|EV267869
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
EST: gi|17519784|gb|BM188826.1|BM188826
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAAGTTAATGAGCTTCCGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAAGTGGTGAATGGTGGAGATCCTCGCCTTCGGGGATGTATTGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCGCTGACCAGgtttgtttatgttatagggtatcttttattttgtaaatgcaaattttgcttgcttgcattttgttgaactaatttttatgtcgttcacacttgcattattaaattggtatattccttgtctatgctttgtgcatgcaatatcttgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT