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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAAAGTAAACGTACATGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctcagttcataactttgattttttataatatatagtagaatgcatgttgacagattgccttgtgttttgtagaaaaaagtctatcatagtgct...

Basic information

species Glycine max
transcript GLYMA14G00760.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G00760.2 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM5G830250_T01 (Zea mays), 5'ss of exon 11
GAAAAAGTAAACGTACATGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctcagttcataactttgattttttataatatatagtagaatgcatgttgacagattgccttgtgttttgtagaaaaaagtctatcatagtgct
|||||    || || ||||||||||||||  |  | || ||||||||||| |||||||||||||||||| |||| || ||| | || |||  | ||    | |  |   || || |||| ||| | |  |    |  ||||| | |  |    || | | ||       | |  |  |         
GAAAAGACTAATGTTCATGGTGGAGCTGTATCTTTAGGACATCCTCTTGGGTGCAGTGGTGCTCGCATTTTGgttactcttcttggtgtaaattctagtcttaaga---tgtttgtttacaatctgttttg---tttatgtt-atatgtatatttatatattcctatgtatacccattt--------

upper sequence: GLYMA14G00760.2 (Glycine max), 5'ss of exon 10
lower sequence: Vv12s0057g01200.t01 (Vitis vinifera), 5'ss of exon 13
GAAAAAGTAAACGTACATGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctcagttcataactttg-attttttataatatatagtagaatgcat-gttgacagattgccttgtgttttgtagaaaaaagtctatca-tagtgct--
|||||||| || || |||||||| |||||  |  |||| |||||||| ||||||||||| || || ||  |||| |||||||||||||||| |  |  | | | | ||||  ||  | | ||||||  | |    |  || ||  | | |  || |       |  |  |     ||| ||  |||      
GAAAAAGTTAATGTGCATGGTGGTGCTGTATCCTTGGGACATCCTCTAGGTTGCAGTGGAGCCCGAATCTTGGTCACACTTTTGGGGgtatat-ttgtgctgaaacctttacatgctctgtaatatcaactgagttaaattgtcaaaaaaaagcatcac----tacattactttctctgtctctagcttccc
















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|10848225|gb|BF070769.1|BF070769
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|192329989|gb|FK021575.1|FK021575
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|17021784|gb|BM092818.1|BM092818
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|15812294|gb|BI784569.1|BI784569
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|31472565|gb|CD414593.1|CD414593
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|151406879|gb|EV276694.1|EV276694
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|298184901|gb|HO030114.1|HO030114
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|192313001|gb|FK003653.1|FK003653
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|31472065|gb|CD414093.1|CD414093
EST:     GTCATCCTCTTGGTTCCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|192313633|gb|FK007617.1|FK007617
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|12689377|gb|BG155774.1|BG155774
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|254347470|gb|GR853719.1|GR853719
EST:     CTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: CTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|192328380|gb|FK020091.1|FK020091
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGA-GAATGGGAAG
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAG
EST: gi|120491401|gb|EH219568.1|EH219568
EST:     CTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: CTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|15203843|gb|BI426611.1|BI426611
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|209708680|gb|BW678861.1|BW678861
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAA
EST: gi|10256517|gb|BE824283.1|BE824283
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
EST: gi|192313632|gb|FK007616.1|FK007616
EST:     GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGG                         GTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA
genomic: GTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctc ... tcacctgcagGTACTGAAGCAGAAGAATGGGAAGTACGGAGTTGGTGGCATTTGCAATGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAAAGTAAACGTACATGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGTTGCAGTGGTGCTCGCATTCTGGTGACACTTTTGGGGgtatgtgctcagttcataactttgattttttataatatatagtagaatgcatgttgacagattgccttgtgttttgtagaaaaaagtctatcatagtgct

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