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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCAAGGATAAGTGTGTTATCTATCTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacctttatatatttatgttttgctttgatgtttggaattgtatgcattgccatattattttttgcgcttattaagtattaaaaacaactattt...

Basic information

species Glycine max
transcript GLYMA08G18410.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18410.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv16s0039g00240.t01 (Vitis vinifera), 5'ss of exon 2
--------------------GTGCAAGGATAAGTGTGTTATCTATC---TAAAAAC--ACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaag-acacctttatatatttatgttt--tgctt-tgatgt--------ttggaa---------ttgtatgcattgccatattattttttgcgcttat----taagtattaaaaacaactattt----------------------------------------------------------
                     | || || |  |  | |||| ||||   ||  |||   ||| |||||| |||||||||||||||| ||||| |||||||||| | | ||  |||   ||| ||  ||  ||||| | ||||         ||| |         || ||| |  ||   |||| || | | |  || |    |     || |  ||   |||                                                            
AATTTGCTAGCAACCAGTTCTTCCAGGGGTTTGGCTATTATTTATCAGTTACCAACTTGCAACATGTCAACTGGGCCTGGACTTGAGTCTCTTGTAGATCgtatgtatactcttaataattcattcttattgcttattatgtaatctctgctgggaaaaaggttgttctattccatggtgtatttttctatccatttttgttttggactttcaggacttttatgattggttcttgcttcgctttatttgtaatcactttcattcttcttttttcttggtgcag
















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|9820147|gb|BE555657.1|BE555657
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|6071299|gb|AW100686.1|AW100686
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|209715542|gb|BW684762.1|BW684762
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|151406500|gb|EV276315.1|EV276315
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|209726604|gb|BW666522.1|BW666522
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|209715541|gb|BW684761.1|BW684761
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|151395707|gb|EV265584.1|EV265584
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|298169812|gb|HO018436.1|HO018436
EST:     CCAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|209721770|gb|BW666390.1|BW666390
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|20813375|gb|BQ297853.1|BQ297853
EST:     CTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|193538078|gb|FK494609.1|FK494609
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|209726603|gb|BW666521.1|BW666521
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|192297078|gb|FG992014.1|FG992014
EST:     CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCAAGGATAAGTGTGTTATCTATCTAAAAACACAAGATGTCAGCTGGGCCTGGACTTGAATCTCTAGTAGATCgtaagacacctttatatatttatgttttgctttgatgtttggaattgtatgcattgccatattattttttgcgcttattaagtattaaaaacaactattt

- - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaacaa