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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatagttgctgagttattttcgattctacggttactaagtcaagttgctaaacactaatctatgcacag

Basic information

species Glycine max
transcript GLYMA19G35710.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G35710.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 4
GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaat--agttgc-tgagttattttcgat---tctacggttactaa--gtcaagttg-ctaaacacta-atctatgcacag
||| ||||||| || |||||||||||||||||||||||||| |||||||   |||| || || |||||   |||    |||| | |  | | |||| |    ||    ||| ||   ||    ||| ||||||  || |  ||| | |||
GTGGTTGAGATAGGAAAAGGGAGCAAGGTGAAATATGAACTCGACAAAACTACGGGTCTCATTAAGgtataaatttgattgcattaactttcttcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcag

upper sequence: GLYMA19G35710.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 5'ss of exon 4
GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatagttgctgagttattttcgattctacggttactaagtcaa------gttgctaaacacta-atctatgcacag
||| |||| || ||||||||||||||||||||||||||||| ||||| ||  | || || ||||||||  | |    | || |   |||||      |||  ||   |  ||||      |||||||||   || ||  |||  |||
GTGGTTGAAATAGGGAAAGGGAGCAAGGTGAAATATGAACTTGACAAGAAAACTGGACTGATCAAGgtaattaggtgttctaatccatttttctaggtactctttgcagatcaacaattggttgctaaattttatattcatgtgcag
















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:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|193399186|gb|FK361734.1|FK361734
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|10844730|gb|BF067948.1|BF067948
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAATTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|193487362|gb|FK451853.1|FK451853
EST:     CGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCCCACAACTATGGGTCT
genomic: CGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|254335061|gb|GR844846.1|GR844846
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|9901982|gb|BE610950.1|BE610950
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|193534902|gb|FK489066.1|FK489066
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|7589208|gb|AW704987.1|AW704987
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|193531554|gb|FK491388.1|FK491388
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|22523592|gb|BU082403.1|BU082403
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|193314904|gb|FK281404.1|FK281404
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTAT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTAT
EST: gi|254335060|gb|GR844845.1|GR844845
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|151398751|gb|EV268622.1|EV268622
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|298189455|gb|HO037858.1|HO037858
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACGAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTGTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|15000402|gb|BI321216.1|BI321216
EST:     AAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|8669991|gb|BE191098.1|BE191098
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|208156025|gb|GD954529.1|GD954529
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|17964359|gb|BM271095.1|BM271095
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|120533838|gb|EH261971.1|EH261971
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|298182727|gb|HO031462.1|HO031462
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
EST: gi|207833133|gb|GD801810.1|GD801810
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG                         ATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatag ... ctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAGgttgtaatagttgctgagttattttcgattctacggttactaagtcaagttgctaaacactaatctatgcacag

- - - - - - - - -  GGAGCA
- - - - - - - - - -  AGCAAG