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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTTCGGGATGATAAGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattgttttgggtgctctggaatcttgtttagttatttaataaattaaatctgacttgtgcattcccttgaag

Basic information

species Glycine max
transcript GLYMA01G36880.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G36880.3 (Glycine max), 5'ss of exon 6
lower sequence: AT4G35950.1 (Arabidopsis thaliana), 5'ss of exon 5
ACCTTCGGGATGATAAGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattgttttgggtgctc--tggaatcttgtttagttatttaataaattaaatctgacttgtgcattcccttgaag
| ||||| ||||| || ||||| | ||| |||||||||||||| || ||||||||||| | |||||| || ||    ||   | |||  || ||| || |  || |  |||  |   | || |    |    |  | | | ||||
ATCTTCGAGATGACAAACAGTTTTTCATCGACCATCCTGGTGCTGTCCCTATTACCACTGTTCAGgtaagaatacagttatttcctcagtgcaattttatc-agct--ttaccaccgttaagcattttccctctctgcatggaag

upper sequence: GLYMA01G36880.3 (Glycine max), 5'ss of exon 6
lower sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
ACCTTCGGGATGATAAGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagta---ttgttttgggtgctctggaatcttgtttagttatttaataaattaaatc---tgacttgtgcattcccttgaag-------
| ||||||||||| || ||||||| ||||||||| ||||| || ||||| ||||| || |||||||| |  |   || || |  |   | ||  |  ||  ||||    ||| | ||   || |   | |   || ||   | |||          
ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaacagaatttttctttgaaatgtgtcaatttacttagcctgttacttaaacgaacccttttaaccgttcaccactttgggcatcaaag

upper sequence: GLYMA01G36880.3 (Glycine max), 5'ss of exon 6
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 5'ss of exon 6
ACCTTCGGGATGATAAGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgag---------------tattgttttgggt---gctctggaatcttgtttag--ttatttaataaattaaatctgacttgtgcattcccttgaag-------------------------
| |||||||| || |||||||||| ||| |||||||||||||| || || ||  |  |||||||||| |                 ||| |    | |      ||  | |    |||||  || |||   |||| | || |   || |   ||   || |                           
ATCTTCGGGAAGACAAGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatgatgtgtcaaacattatcacagatttaatccttaatttgcatttagaattttttgcaaaataatattttctttttttgttttatttatttgtatttattcatgtttcatccaag

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|6746963|gb|AW317419.1|AW317419
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAT                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|9819855|gb|BE555431.1|BE555431
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|26268044|gb|CA819107.1|CA819107
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|193380083|gb|FK348265.1|FK348265
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|31455813|gb|CD397841.1|CD397841
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|38193058|gb|CF922264.1|CF922264
EST:     GTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: GTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|5175630|gb|AI759963.1|AI759963
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAT                         GGAGAAGAGCTTANGATGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|31306633|gb|CD391836.1|CD391836
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|7925509|gb|AW831535.1|AW831535
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTATGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|5688224|gb|AI941239.1|AI941239
EST:     AGCAGTTCTGCATTGACCATTCTGGTGCCGTACCTATTACCACAGCTCAT                         GGAGAAGAGCTTATGATGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|31469737|gb|CD411765.1|CD411765
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|17519189|gb|BM188231.1|BM188231
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|14991554|gb|BI317227.1|BI317227
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|31309981|gb|CD395184.1|CD395184
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
EST: gi|31458682|gb|CD400710.1|CD400710
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattg ... tcccttgaagGGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCTTCGGGATGATAAGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgagtattgttttgggtgctctggaatcttgtttagttatttaataaattaaatctgacttgtgcattcccttgaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA