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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTCGCGAGTTTCTTTGGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatcaaatagttattttaggaatttgtctttttgaatcagttcagttgtataagctgccttgatttcgtcatcttctgtctttgcatgcttaat...

Basic information

species Glycine max
transcript GLYMA19G40930.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G40930.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 6
GAGTCGCGAGTTTCTTTGGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatcaaatagttattttaggaatttgtctttttgaatcagttcagttgtataagctgccttgatttcgtcatcttctg--tctttgcatgcttaat
||| || ||||| ||||||||||||||||| || ||||||||||| || || || || || | ||||||| || |     |  ||      | | ||  ||    | ||       | |    |  |||    ||  |   | |      |  |||| | |   | |  
GAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGAGGAGGCTGACGAAGAGgtactgtacttgttt-ttgcaaccgcagttcatcagggttaactgccatattgaagtgggctcgaatgcatggatgaaggggggattcttaggaaaatgag-

upper sequence: GLYMA19G40930.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 5'ss of exon 7
GAGTCGCGAGTTTCTTTGGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatcaaatagtt--attttaggaatt--tgtctttttgaatcagttcagttgtataagctgccttgatttcgtcatcttctgtctttgcatgcttaat
|||||| || ||||||||||| || ||||| ||||||||||| |||||||| || ||||||  |||||||| | ||  |     |  |  ||| || ||  |||   |  |  ||| |  |    |  ||  ||   | | || || || ||        | | | |||| 
GAGTCGGGAATTTCTTTGGCAGGAGGGGCATACTGCTTTTGCTACAAAGGAAGAGGCAGATAAAGAGgtatggaattcagggtcttaaacttatgacttcttgtgaatcggggtcactagatagttgaaaagtgaaatcaatttgtaatatttaaa----gaaagtttaaa
















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|193369070|gb|FK334792.1|FK334792
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTTATTTGGC
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGT-ATTTGGC
EST: gi|193522640|gb|FK478677.1|FK478677
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193430919|gb|FK398149.1|FK398149
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193659280|gb|FK605947.1|FK605947
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAATATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193330683|gb|FK296175.1|FK296175
EST:     TTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: TTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193616813|gb|FK569243.1|FK569243
EST:     GGCAAGAAGGGCACACTGCTTTTACAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193385256|gb|FK352718.1|FK352718
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGAC
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGG-C
EST: gi|193377536|gb|FK341060.1|FK341060
EST:     CAAAGGAGGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: CAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|207844905|gb|GD817456.1|GD817456
EST:     GTCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: G-CAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|9899427|gb|BE608395.1|BE608395
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193533168|gb|FK493688.1|FK493688
EST:     CAAAGGAGGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: CAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193325700|gb|FK288534.1|FK288534
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193429100|gb|FK397646.1|FK397646
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|193360197|gb|FK325051.1|FK325051
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|207758541|gb|GD726795.1|GD726795
EST:     AAGGAGGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: AAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
EST: gi|208315695|gb|GE110565.1|GE110565
EST:     GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAG                         GTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA
genomic: GGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatc ... actgcttcagGTTCTTGAGATTCTGGAATTATATAGGCGTATATACGAAGAGTATTTGGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTCGCGAGTTTCTTTGGCAAGAAGGGCACACTGCTTTTGCAACAAAGGATGAAGCAGATGCAGAGgtattgcatcaaatagttattttaggaatttgtctttttgaatcagttcagttgtataagctgccttgatttcgtcatcttctgtctttgcatgcttaat

- - - - - - - - - GCAAGA
- - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG