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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttctttcgttgataataagaataataatttaatcgttcccaggagatgggggttttgtttattaataattttcttagatttgacaagtgtttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCCCTGACAGAAAAAGGAACGGTGGAGATGGAGGCTAGCATCATGGATGGTC

Basic information

species Glycine max
transcript GLYMA17G35650.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G35650.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G16150.1 (Arabidopsis thaliana), 3'ss of exon 1
tttctttcgttgataataagaataataatttaatcgttcccaggagatgggggttttgt-ttattaataattttcttagatttgacaagtgtttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCCCTGACAGAAAAAGGAACGGTGGAGATGGAGGCTAGCATCATGGATGGTC
                         ||  ||     | ||||  |        |   || || ||  | | ||   || | |  || | || ||   |||| | || |||||||| |||||||| ||||| ||||| ||||||||||||||  |||| |||||||||||||| |||||||| |||||||| ||||| ||| 
------------------------gtacgttctctttccccacaatgatttcttacggtgttcttgttgaatta--tatactaaacgattgattaacacagATTAGAGAATTGGAGACGGATCCTCTGTTTAATTCAGGCCGTGGATCTGCTTTGACGGAAAAAGGAACGGTTGAGATGGAAGCTAGCATTATGGACGGTA

upper sequence: GLYMA17G35650.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0001g09910.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------------------------------tttctttcgttgataa---------taagaataataatttaatcgttcccaggagatg---ggggttttgtt-------------tattaataattttcttagatttgacaagtgtt-tgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCCCTGACAGAAAAAGGAACGGTGGAGATGGAGGCTAGCATCATGGATGGTC
                                                 | |||       | ||         |||    | ||||||   | ||  ||   || |   ||  ||  |               |||   |  |  ||||   |||   | ||||  ||||||||||| | ||| |||| |  || || ||||| || || || ||||| || |||||||| ||||| ||||||||||||||||| || ||||||||||| || |
gtaggtttttctttttcaccttgttattctgcgttttccatttacgttatctctcggaccaaaaaaacaacgcataaaggaattaatttggccattgtcaaacgacgtctggaattgagaaccagaatggaagatataggtgttcatcttgtgttttg-atgtgtcgtgtgacagGTGCGAGAACTGGAGAGTGACCCCCTGTTTAACTCAGGGCGTGGGTCAGCCCTGACTGAAAATGGAACGGTGGAGATGGAAGCCAGCATCATGGACGGCC
















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|208117341|gb|GD919039.1|GD919039
EST:     TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTG                         GTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
genomic: TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTGgtaatctcat ... tttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
EST: gi|10846578|gb|BF069419.1|BF069419
EST:     TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTCGAACTTGTG                         GTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
genomic: TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTGgtaatctcat ... tttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
EST: gi|9986744|gb|BE660852.1|BE660852
EST:     TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTG                         GTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
genomic: TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTGgtaatctcat ... tttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
EST: gi|105633504|gb|DW246867.1|DW246867
EST:     TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTCGAACTTGTG                         GTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
genomic: TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTGgtaatctcat ... tttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
EST: gi|16105208|gb|BI892948.1|BI892948
EST:     TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCTTTGATCTTGTG                         GTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
genomic: TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTGgtaatctcat ... tttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
EST: gi|208340690|gb|GE133626.1|GE133626
EST:     TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTG                         GTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC
genomic: TCTCTGCTCTAAATTCTAATCTTCCCGCCATAGATGTCGTTGAACTTGTGgtaatctcat ... tttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgggggttttgtttattaataattttcttagatttgacaagtgtttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCCCTGACAGAAAAAGGAACGGTGGAGATGGAGGCTAGCATCATGGATGGTC
        ttttgtttattaataa  TA-rich tract
















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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttctttcgttgataataagaataataatttaatcgttcccaggagatgggggttttgtttattaataattttcttagatttgacaagtgtttgtgacagGTGAGGGAATTGGAAACGGATCCGCTGTTCAATTCGGGCCGTGGATCTGCCCTGACAGAAAAAGGAACGGTGGAGATGGAGGCTAGCATCATGGATGGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - -aagaataa
- - - - - - - - - - - - - - - - - cgttccc
- - - - - - - - - - - - - - - - - - - - - - - - gggggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacaag