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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaaagataaaaaataaacaatcaaacatgagaatagactaaagatgattccattcagcaaaaacaaatagtaagtcttttcaactgtctggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGAGGCTTTCAGCTCAGCAGCCAAAAAC

Basic information

species Glycine max
transcript GLYMA12G10210.2
intron # 4
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|23064258|gb|BU579031.1|BU579031
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|31474066|gb|CD416094.1|CD416094
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|13788666|gb|BG651257.1|BG651257
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|7691759|gb|AW759880.1|AW759880
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|192299092|gb|FG990406.1|FG990406
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|209725577|gb|BW677879.1|BW677879
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGTCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|31467872|gb|CD409900.1|CD409900
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|31471406|gb|CD413434.1|CD413434
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA
EST: gi|209702927|gb|BW667449.1|BW667449
EST:     CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA                         GGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGTCACAGGGA
genomic: CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAAgtaagtattc ... ggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattccattcagcaaaaacaaatagtaagtcttttcaactgtctggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGAGGCTTTCAGCTCAGCAGCCAAAAAC
              aaaaacaaatagtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaaagataaaaaataaacaatcaaacatgagaatagactaaagatgattccattcagcaaaaacaaatagtaagtcttttcaactgtctggttttgcagGGAGGAAATTCAAAGGATTAAGGCTAGTAATCCAGATATCAGCCACAGGGAGGCTTTCAGCTCAGCAGCCAAAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - aaaaaat
- - - - - - - - - - - caaacat
- - - - - - - - - - - - - - - - - - - - - - - - - ccattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaa