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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAAGGGGAAGAAGAGAGTGAAATGGGGGAGCTTTACGCGTTGGACTTCGATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcctctcttcattccacccaaaacttttttttattttattttaaatcttttaaattttcattttttaattttttttcttctttcaattgttttttcctctgtgaattcataagggtgctaaattaagcttatgatttactgtgtttggcaatttgca

Basic information

species Glycine max
transcript GLYMA18G46830.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46830.1 (Glycine max), 5'ss of exon 1
lower sequence: AT2G45990.1 (Arabidopsis thaliana), 5'ss of exon 1
GAAAAGGGGAAGAAGAGAGTGAAATGGGGGAGCTTTACGCGTTGGACTTCGATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcctctcttc--attccacccaaaacttttttttattttattttaaatcttttaaattttcattttttaattttttttcttctttcaattgttttttcctctgtgaattcataagggtgctaaattaagcttatgatttactgtgtttggcaatttgca
| | || |||| ||| || |||||| || || ||||| ||||||||||||||||| | |||||||| || |||||||||||||| |||||| | ||||| || | ||||| | | ||| | ||| | | || | | | | ||| | ||||| |||||| || | | ||| || | | || || | ||| | | ||||| |
GTAGTGGTGAAGGAGA-AGGAGAATGGGAGATCTCTACGCTTTGGACTTCGATGGAGTTCTCTGTGATAGTTGTGGAGAAAGCTCTCTATCTGCTGTTAAGgtcaatttcactcttttaactttacctttcgcatttg---agatacttctgtgtttctctgattctgattttgaaattttggagttttgt---gatatttcttgcccagttttgcttgaacatcttttgatt--gttctgtatttatag----------------

upper sequence: GLYMA18G46830.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv15s0046g02330.t01 (Vitis vinifera), 5'ss of exon 1
GAAAAGGGGAAGAAGAGAGTGAAATGGGGGAGCTTTACGCGTTGGACTTCGATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttg-gttcctctcttcattccacccaaaactttttttt-----attttattttaaatcttttaaattt--tcattttttaattttttttcttctttcaattgttttttcctctgtgaattcataagggtgctaaa--ttaagcttatgatttactgtgtttggcaatttgca---------
|||| |||||||| || |||||||||||||| ||||||||| | | || |||||||| ||||| ||||||||||| ||| |||||||| | || |||| ||| | | | || || | | | | || |||| || |||| | || || || | | | | ||| || | | | | ||| || |||| | | |||| || |||| | | |
------------CTCAGAG-GAAATGGGCGATCTTTACGCGTTGGATTTCGATGGAATTCTCTGCGATAGCTGTGGAGAGAGCTCTCTCTCCGCTGTCAAGgtttcgctcttctccgttttcgtcaccatgtttggttccgagaaaataaagtaaaagcaagataaaattagccattgtgcaaaattgccgaagctgtttact-tcattttcttggcaaccaaacagaggttttagggcttaacgaagtaaattac-gtttttgatgttgttctcctttgtag
















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|209713411|gb|BW681466.1|BW681466
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|151406125|gb|EV275940.1|EV275940
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|4437055|gb|AI522920.1|AI522920
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|151411748|gb|EV281559.1|EV281559
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|209703963|gb|BW667953.1|BW667953
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|33389737|gb|CA852944.1|CA852944
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|213587116|gb|DB959537.1|DB959537
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|192331284|gb|FK023781.1|FK023781
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|298185946|gb|HO031107.1|HO031107
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|298192058|gb|HO036140.1|HO036140
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|192301669|gb|FG997611.1|FG997611
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|209727899|gb|BW663413.1|BW663413
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|298197195|gb|HO041938.1|HO041938
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAACTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
EST: gi|151398479|gb|EV268350.1|EV268350
EST:     GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAA                         GGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC
genomic: GATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcc ... gcaatttgcaGGCTGCCAAAGTGAGATGGCCTGGTTTGTTTGATGGGGTGGATTCAACCAC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAAGGGGAAGAAGAGAGTGAAATGGGGGAGCTTTACGCGTTGGACTTCGATGGAGTCATATGTGATAGCTGCGGAGAAAGCTCTCTCTCTGCTCTCAAggttggttcctctcttcattccacccaaaacttttttttattttattttaaatcttttaaattttcattttttaattttttttcttctttcaattgttttttcctctgtgaattcataagggtgctaaattaagcttatgatttactgtgtttggcaatttgca

- - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA