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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGCTGTTCAAGGACTACCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgttttttatttaatccttcaatttttgtggcacaaacacaatgcatggaatgggtatttgttttgttattggatgttctatttagcttgtgtgaa...

Basic information

species Glycine max
transcript GLYMA18G49070.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G49070.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G150616_T01 (Zea mays), 5'ss of exon 2
-TCTGCTGTTCAAGGACTACCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgttt---tttattt---aatccttcaatttttgtggcacaaacacaatgcatggaatgggtatttgttttgttattggatgttctatttagcttgtgtgaa
 |||||||| |||||||||||| | |||||| ||||||||| |||| |||||| |  | | ||| || || |||| ||   |   |||   ||  |  |  ||  | | |  ||    |  | | |  | | ||   ||| |||||  ||      |||      || |  ||||
ATCTGCTGTACAAGGACTACCAGACTGACCACAAGTTCACCCTCACTACCTACACCTCCAATGGCGTCgtaagtgcttcgctccgtttcggaacaccccgtttcctcttgttcagcttcggtccttttactagggcgttgctttgtgctt------tct-ccggactggaatgaa

upper sequence: GLYMA18G49070.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G115049_T01 (Zea mays), 5'ss of exon 2
-TCTGCTGTTCAAGGACTACCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgttttttatttaatccttcaatttttgtggc-acaaacacaatgcatggaatgggtatttgttttgttattggatgttctatttagcttgtgtgaa---
 ||| || |  |||||||||||||  ||||||||||||||  ||||||||||| |  | |  |||| |||||||   ||  | |  |  || |  | |||||       |   |      |       |   ||| ||||  ||  ||||      |  |||| | | |    
ATCTCCTATATAAGGACTACCACACGGACCAGAAGTTCACGCTCACCACCTACGCCGCCAACGGAGCTgtgagt---ttccactcgactctccggtatttgtttttgtgatgtcgccttgttactcttggccttgatttgacat--gatgcataggtaggctttttttagtgg
















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|193725524|gb|FK660616.1|FK660616
EST:     ACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: ACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|9204535|gb|BE330759.1|BE330759
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|213611942|gb|DB964834.1|DB964834
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAAC-GTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|192319809|gb|FK011905.1|FK011905
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|13252098|gb|BG363001.1|BG363001
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|38192070|gb|CF921276.1|CF921276
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|18733680|gb|BM527751.1|BM527751
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|16347720|gb|BI973315.1|BI973315
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|20813195|gb|BQ297673.1|BQ297673
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|14516484|gb|BI095156.1|BI095156
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGACATCACTGAACCACCGAAAAGTGAACTGTTTCTGGCTGATG
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAG-CATCA-GGAACCA-GGAAAAGTGAACTGTTTCTGGCTGATG
EST: gi|10845161|gb|BF068322.1|BF068322
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|5760695|gb|AI966058.1|AI966058
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|16347860|gb|BI973455.1|BI973455
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGTTAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|6746954|gb|AW317410.1|AW317410
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|213611750|gb|DB960650.1|DB960650
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|192314315|gb|FK007053.1|FK007053
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|19935870|gb|BQ080621.1|BQ080621
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCATGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|213614932|gb|DB957012.1|DB957012
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|120531919|gb|EH260052.1|EH260052
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|16280918|gb|BI944216.1|BI944216
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|19935867|gb|BQ080620.1|BQ080620
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCATGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|12497297|gb|BG047496.1|BG047496
EST:     CCACAGTGACCAAAAGTTCACCATGACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|209714837|gb|BW682002.1|BW682002
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|254315417|gb|GR825226.1|GR825226
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|8826174|gb|BE209834.1|BE209834
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|193721203|gb|FK662461.1|FK662461
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|26047978|gb|CA784608.1|CA784608
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|298183076|gb|HO028339.1|HO028339
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTGG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|192322089|gb|FK012193.1|FK012193
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|15813385|gb|BI785660.1|BI785660
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|192329954|gb|FK021540.1|FK021540
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
EST: gi|192314316|gb|FK007054.1|FK007054
EST:     CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTG                         CTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA
genomic: CCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgtttt ... ctgcttcaggCTATTACAGCATCAGGAACCAGGAAAAGTGAACTGTTTCTGGCTGATGTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGCTGTTCAAGGACTACCACAGTGACCAGAAGTTCACCATCACCACCTACTCACCGACTGGAGTTGtgagtgttttttatttaatccttcaatttttgtggcacaaacacaatgcatggaatgggtatttgttttgttattggatgttctatttagcttgtgtgaa

- - - - - - - - - - - - - -  AGAAGT