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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTTCAGGCTCTCATCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAGgttgtttaacattcctttcaggctttacttgccttgttaattctgatattgtgtctgaatggtgattgaacttttggaaatttctag

Basic information

species Glycine max
transcript GLYMA20G30820.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G30820.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0072g00310.t01 (Vitis vinifera), 5'ss of exon 6
GCTTTCAGGCTCTCATCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAGgttgtttaacattcctttcaggctttacttgccttgt--taattctgatattgtgtctgaatggtgattgaact---tttggaaatttctag---------------------
| ||||| || || ||||||||||||||||| |||||||| ||||| ||||| | | | ||||||||   |   || |  | |        | || | |||   |    ||| | |    |||||  | | | | |  |   | |  | |  | |                       
GTTTTCAAGCCCTTATCCAGTATCAATCACGCCAGAGTGCAGTTGCAGCAAGGAATTCTCTTCAGgtatgtggtcaattttgtagtcaacaatttactttgaagtggagctgttttaaattctgatggataactcatttggatctaaagaagtttgatccttggcttcttctttatag
















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|193579113|gb|FK536749.1|FK536749
EST:     TCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGTAGTACACTTCAG                         GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA
genomic: TCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAGgttgtttaac ... aaatttctagGGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA
EST: gi|208136236|gb|GD940091.1|GD940091
EST:     TCCAGTATCAATCACGTCAGAGTGCTGTTGCAGCAAGAAGTACACTTCAG                         GGACGCAATATTTATGATG
genomic: TCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAGgttgtttaac ... aaatttctagGGACGCAATATTTATGATG
EST: gi|17400944|gb|BM177726.1|BM177726
EST:     TCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAG                         GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA
genomic: TCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAGgttgtttaac ... aaatttctagGGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA
EST: gi|151404880|gb|EV274694.1|EV274694
EST:     TCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAG                         GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA
genomic: TCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAGgttgtttaac ... aaatttctagGGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTTCAGGCTCTCATCCAGTATCAATCACGTCAGAGTGCTGTTGCGGCAAGAAGTACACTTCAGgttgtttaacattcctttcaggctttacttgccttgttaattctgatattgtgtctgaatggtgattgaacttttggaaatttctag

- - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT