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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagaataaggttgttgtgttgtatgaatttgagcatggggtctcttcttttgatgttgcggtagtattccctgactccgttgtcccctttgctgaacagAAACTCGCTCCTTTAACTCACATTTTTAGATTGAACGATAAGTGGTGTCAAAGATGCTTTCAACTCAATGGGTTGAACTATCTTCAACTGTCAACCGGTG

Basic information

species Glycine max
transcript GLYMA08G19760.1
intron # 1
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|20075473|gb|BQ094256.1|BQ094256
EST:     GCGCGACCCACCATCTCCGCCTTGGGGTTCTTCTTCACTCCTGTTTCAAG                         AAACTCGCTCCTTTAACTCACATTTTTAGATTGAACGATAAGTGGTGTCAA
genomic: GCGCGACCCACCATCTCCGCCTTGGGGTTCTTCTTCACTCCTGTTTCAAGgtcccttttc ... tgctgaacagAAACTCGCTCCTTTAACTCACATTTTTAGATTGAACGATAAGTGGTGTCAA
EST: gi|208079414|gb|GD877590.1|GD877590
EST:     GCGCGACCCACCATCTCCGACTTGGGGTTCTTCTTCACTCCTGTTTCAAG                         AAACTCGCTCCTTTAACTCACATTTTTAGATT
genomic: GCGCGACCCACCATCTCCGCCTTGGGGTTCTTCTTCACTCCTGTTTCAAGgtcccttttc ... tgctgaacagAAACTCGCTCCTTTAACTCACATTTTTAGATT
EST: gi|151406516|gb|EV276331.1|EV276331
EST:     GCGCGACCCACCATCTCCGCCTTGGGGTTCTTCTTCACTCCTGTTTCAAG                         AAACTCGCTCCTTTAACTCACATTTTTAGATTGAACGATAAGTGGTGTCAA
genomic: GCGCGACCCACCATCTCCGCCTTGGGGTTCTTCTTCACTCCTGTTTCAAGgtcccttttc ... tgctgaacagAAACTCGCTCCTTTAACTCACATTTTTAGATTGAACGATAAGTGGTGTCAA
EST: gi|207763253|gb|GD735206.1|GD735206
EST:     GCGCGACCCACCATCTCCGCCTTGGGGTTCTTCTTCACTCCTGTTTCAAG                         AAACTCGCTCCTTTAACTCACATTTTTAG
genomic: GCGCGACCCACCATCTCCGCCTTGGGGTTCTTCTTCACTCCTGTTTCAAGgtcccttttc ... tgctgaacagAAACTCGCTCCTTTAACTCACATTTTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttttgatgttgcggtagtattccctgactccgttgtcccctttgctgaacagAAACTCGCTCCTTTAACTCACATTTTTAGATTGAACGATAAGTGGTGTCAAAGATGCTTTCAACTCAATGGGTTGAACTATCTTCAACTGTCAACCGGTG
                        ccctgac  putative branch site (score: 3)
                              ctccgttgtccccttt  CT-rich tract
                 tagtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagaataaggttgttgtgttgtatgaatttgagcatggggtctcttcttttgatgttgcggtagtattccctgactccgttgtcccctttgctgaacagAAACTCGCTCCTTTAACTCACATTTTTAGATTGAACGATAAGTGGTGTCAAAGATGCTTTCAACTCAATGGGTTGAACTATCTTCAACTGTCAACCGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - gttgttg
- - - - - - - - - - tgtatga
- - - - - - - - - - - - - - - - -gcatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - gatgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccctg