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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAGGATGCTTTTGCAACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatggcacgcgaatatatataggagatgtatctagtgaggagtaaatcttaaccgtacaactatgctggaatggtcaagattaaagggtattaa...

Basic information

species Glycine max
transcript GLYMA12G00830.5
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G00830.5 (Glycine max), 5'ss of exon 6
lower sequence: AT5G61500.1 (Arabidopsis thaliana), 5'ss of exon 7
TCAAGGATGCTTTTGCAACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagat-atggcacgcgaatatatataggagatgtatctagtgagg--agtaaatcttaaccgtacaac-tatgctggaatggtcaagattaaagggtattaa------------------------
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TCAAGGATGCTGCTGCAACCTGAACTTGTAATGGAGGATGTTAGCCAAGACCATGCTCGTAAAACGgtaaaaggaagacaatctcaactgcatcaattaccctttttgttattccaccaaagttttcctgacttatgtcttctgaatctgaccaatgtagagtatttttgtgatcgtctttcaaaaatgcacag

upper sequence: GLYMA12G00830.5 (Glycine max), 5'ss of exon 6
lower sequence: PP1S62_116V6.2 (Physcomitrella patens), 5'ss of exon 9
-TCAAGGATGCTTTTGCAACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatggcacgcg-aatatatataggagatgtatctagtgaggagtaaatcttaaccgtacaactatgctggaatggtcaagattaaagggtattaa---
| || | | |||||||||||||| | || || ||||||||||||||||||||||| ||||| | | |||| || | || | | || | | || | | | || || || | || | | ||||
ACCCGTTAT-TTGCTTCAACCAGAACTTGTGTTGGAGGACGTTAGTCAAGACCATGCACGCAAGACGgtacgtccagtcacgtacaacagatgtctatattacccctcaacttggttcgat--tgaacttattctcttgttgtga--accatcttccctcctttttaaatg
















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|31312555|gb|CD397758.1|CD397758
EST:     AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
EST: gi|207721023|gb|GD702724.1|GD702724
EST:     AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
EST: gi|193369407|gb|FK336669.1|FK336669
EST:     AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAGACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
EST: gi|192330861|gb|FK021620.1|FK021620
EST:     AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
EST: gi|193463512|gb|FK427436.1|FK427436
EST:     AACCAGAACTTGTTCTTGAAGTTGTTAGTCAAGACCATGCACGCAAAACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCGTGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
EST: gi|9820599|gb|BE556109.1|BE556109
EST:     ACCCCGANCTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAANCG                         GT-ACNNATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCA
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAAC-AATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCA
EST: gi|19346154|gb|BM891034.1|BM891034
EST:     AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
EST: gi|21887729|gb|BQ740942.1|BQ740942
EST:     AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
EST: gi|31468734|gb|CD410762.1|CD410762
EST:     AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCTAAACG                         GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAAGGATGCTTTTGCAACCAGAACTTGTTCTTGAAGATGTTAGTCAAGACCATGCACGCAAAACGgtgagatatggcacgcgaatatatataggagatgtatctagtgaggagtaaatcttaaccgtacaactatgctggaatggtcaagattaaagggtattaa

- - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - AAGATG