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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtaacatcaacatatacatatagtggaacttttatttttccatcccctactttggtttcaatttatattgtatgttgatgactttgaattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATTAGAACAAGCTGTGCTGGATATGAACAATGATTTGATCAAGGTTCGCCAA

Basic information

species Glycine max
transcript GLYMA18G47890.1
intron # 2
splice site 3'
intron type U2

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|4395914|gb|AI494911.1|AI494911
EST:     GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAA                         GTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
genomic: GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAAggtaacatca ... aattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
EST: gi|192306186|gb|FG995036.1|FG995036
EST:     GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAA                         GTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
genomic: GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAAggtaacatca ... aattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
EST: gi|151412234|gb|EV282046.1|EV282046
EST:     GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAA                         GTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
genomic: GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAAggtaacatca ... aattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
EST: gi|192294504|gb|FG987433.1|FG987433
EST:     GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAA                         GTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
genomic: GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAAggtaacatca ... aattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
EST: gi|151398835|gb|EV268706.1|EV268706
EST:     GCCCTTGGCACTCAAGTGAATCTTTTTAGCAGATTTGCTAGAGTTATCAA                         GTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT
genomic: GCCCTTGGCACTCAAATGAATCTTTTTAGCAGATTTGCTAGAGTTATCAAggtaacatca ... aattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcccctactttggtttcaatttatattgtatgttgatgactttgaattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATTAGAACAAGCTGTGCTGGATATGAACAATGATTTGATCAAGGTTCGCCAA
                               tgttgat  putative branch site (score: 4)
              tttcaatttatattgt  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtaacatcaacatatacatatagtggaacttttatttttccatcccctactttggtttcaatttatattgtatgttgatgactttgaattaatgcaGTCATATGCTAATGCCATTATAAGCTCCTTTGAAGACCCTGAGAAGATATTAGAACAAGCTGTGCTGGATATGAACAATGATTTGATCAAGGTTCGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA