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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggatcttgtcgttgtcgtcttagtattaaatctgtcttaatttatgttatgtatgttttgtaaattgtaagattcaaaacttaactcatacttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAG

Basic information

species Glycine max
transcript GLYMA19G35710.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G35710.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 5
tggatcttgtcgttgtcgtctt--agtattaaatctgtcttaatttatgttatgtatgttttgtaaattgtaag--attcaaaacttaactcatacttga-acagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAG
      |  ||  |   ||||   || || |      ||| | | | | |||| |   |  |  |||    |    ||   || |||     ||| ||   |||||| |||||  | ||||| |||||||||||||||||||| |||||||| ||||| ||||||||||||
-----ttaatcaatcaagtctataagcatcatcagcatctcagtctgtcttatttgactggtagaaaacacatctcatgtgaatcttgttgaatattttctacagGAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAG

upper sequence: GLYMA19G35710.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 3'ss of exon 5
tggatcttgtcgttgtcgtcttagtattaaatctgtcttaatttat-gttatgtatgttt-tgtaaattgtaagattc---aaaacttaactcatacttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAG
   || || | | ||| |  |   |  | ||| |  | || |  |  |  |||  | |   || ||| | | | ||||   |   |||   ||| || |  |||||| || ||||||||||| |||||||| ||||| ||||| |||||||||||||| ||||||||||||
--aattttttggatgt-gcttggtttctgaatattccatattacaaagcaatggttataaatggaaactctcatattccttatggctt--ttcaaacatttacagGAACCAGTTCTTCCAGGATGCTTTCTCCGGGCTAAAGCTATTGGTCTCATGCCTATGATTGATCAG

upper sequence: GLYMA19G35710.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ33488 (Selaginella moellendorffii), 3'ss of exon 4
tggatcttgtcgttgtcgtcttagtattaaatctgtcttaatttatgttatgtatgttttgtaaattgtaagattcaaaacttaactcatacttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAG
              ||   |||   ||    | | |  |  |||   |  | |    || |||||   |      |||   | ||||  | | |||||||||||| |||||||||||    ||||| || |||||||| || || |||||||| ||||| ||||||
--------------gtgagcttc-catctctttttttcttttttccctggttttgtcttagtaaacgctctcggccaag--tgaactttt-catgaacagGAGCCTGTTCTTCCAGGAGCGTTTCTCCGAGCCAAAGCCATCGGGCTCATGCCGATGATCGATCAG

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|192301012|gb|FG990112.1|FG990112
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|193399186|gb|FK361734.1|FK361734
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|193487362|gb|FK451853.1|FK451853
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|254335061|gb|GR844846.1|GR844846
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|9901982|gb|BE610950.1|BE610950
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|7589208|gb|AW704987.1|AW704987
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|193724545|gb|FK662691.1|FK662691
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTCTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|193555433|gb|FK514310.1|FK514310
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|193531554|gb|FK491388.1|FK491388
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|22523592|gb|BU082403.1|BU082403
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|207757093|gb|GD730051.1|GD730051
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|254335060|gb|GR844845.1|GR844845
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|151398751|gb|EV268622.1|EV268622
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|298189455|gb|HO037858.1|HO037858
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|193588246|gb|FK544037.1|FK544037
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTCTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|15000402|gb|BI321216.1|BI321216
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|8669991|gb|BE191098.1|BE191098
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|208156025|gb|GD954529.1|GD954529
EST:     GTACTATTTGTGAGGACAGTGATCCCCGGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|17964359|gb|BM271095.1|BM271095
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|120533838|gb|EH261971.1|EH261971
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|298182727|gb|HO031462.1|HO031462
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTTCTTTGGGCCAAAGCAATTGGTCTCATG
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATG
EST: gi|207833133|gb|GD801810.1|GD801810
EST:     GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAG                         GAGCCGGTTCTTCCAGGTTGCTTT
genomic: GTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTATTATGCAGgtatttatat ... acttgaacagGAGCCGGTTCTTCCAGGTTGCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttatgtatgttttgtaaattgtaagattcaaaacttaactcatacttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAG
                                  acttaac  putative branch site (score: 3)
       tatgttttgtaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggatcttgtcgttgtcgtcttagtattaaatctgtcttaatttatgttatgtatgttttgtaaattgtaagattcaaaacttaactcatacttgaacagGAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - ctgtctt
- - - - - - - - - - - - - - - - - - - - - - - - - tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaact