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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGAAAATGGAGGCCCATACAAGGCTTCAATACCACTCAGTCAGGCCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaatttgactttttgtatgctatcttcttgcagcactaaagtttttcgagttttttgtttcggagatttcattactttctataagaaacaagta...

Basic information

species Glycine max
transcript GLYMA19G18330.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G18330.3 (Glycine max), 5'ss of exon 7
lower sequence: AT3G01910.3 (Arabidopsis thaliana), 5'ss of exon 3
GAGGAAAATGGAGGCCCATACAAGGCTTCAATACCACTCAGTCAGGCCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaatttgactttttgtatg---ctatctt---cttgcagcactaaa-gttt----ttcgagttt---tttgt-ttcggagatttcattactttctataagaaacaagta----------
   |||||||| ||||| || ||||| |||||  | || ||||| ||||||||||||||||| ||||||||||| |||||||| |||||||| || ||   |||  | |   |  |  ||    ||  |||    ||  | ||  |   ||||    |  |||| |   |  ||  ||||| || |  ||| ||  |  || |      |           
---GAAAATGGGGGCCCTTATAAGGCGTCAATCACTCTAAGTCAAGCCACAAATCCTGAAGCGGATGTTCTACTCGCTTATGAGATGAATGGAGAGgtt--tgatatcgctctcctaaattagtctcacttgtgtttaaatcatcacttgtttgacatgtgagtatgagtgagtactcggaaatgtgcttatttgttggaaaacgtgtttcttctgtgaag

upper sequence: GLYMA19G18330.3 (Glycine max), 5'ss of exon 7
lower sequence: AT3G01910.1 (Arabidopsis thaliana), 5'ss of exon 7
GAGGAAAATGGAGGCCCATACAAGGCTTCAATACCACTCAGTCAGGCCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaatttgactttttgtatg---ctatctt---cttgcagcactaaa-gttt----ttcgagttt---tttgt-ttcggagatttcattactttctataagaaacaagta----------
||||||||||| ||||| || ||||| |||||  | || ||||| ||||||||||||||||| ||||||||||| |||||||| |||||||| || ||   |||  | |   |  |  ||    ||  |||    ||  | ||  |   ||||    |  |||| |   |  ||  ||||| || |  ||| ||  |  || |      |           
GAGGAAAATGGGGGCCCTTATAAGGCGTCAATCACTCTAAGTCAAGCCACAAATCCTGAAGCGGATGTTCTACTCGCTTATGAGATGAATGGAGAGgtt--tgatatcgctctcctaaattagtctcacttgtgtttaaatcatcacttgtttgacatgtgagtatgagtgagtactcggaaatgtgcttatttgttggaaaacgtgtttcttctgtgaag
















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|193468646|gb|FK431394.1|FK431394
EST:     CAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|208054138|gb|GD855367.1|GD855367
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|213598745|gb|DB964283.1|DB964283
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|208074830|gb|GD869573.1|GD869573
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|193517834|gb|FK473053.1|FK473053
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGG
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGG
EST: gi|207740505|gb|GD713771.1|GD713771
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|193335863|gb|FK299793.1|FK299793
EST:     CACAAATACCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CACAAAT-CCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|209713968|gb|BW681975.1|BW681975
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|208296656|gb|GE091296.1|GE091296
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTC
EST: gi|24205759|gb|BU965012.1|BU965012
EST:     CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAA                         CCTCTTAACAGGGATTATGGGTATCCA
genomic: CCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaat ... ctttcattagCCTCTTAACAGGGATCATGGGTATCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGGAAAATGGAGGCCCATACAAGGCTTCAATACCACTCAGTCAGGCCACAAATCCTGAAGCAGATGTTCTACTAGCTTATGAAATGAATGGTGAAgtaagtgaatttgactttttgtatgctatcttcttgcagcactaaagtttttcgagttttttgtttcggagatttcattactttctataagaaacaagta

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG