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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAGATCCTCCTTTATCCGCACAAAATGACATTGTAGAATCTGATATAGAGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatgcatgtgttatgtatgtatggttaatgtccatgcctcaacaaatctgtaattttaatgtatttgcag

Basic information

species Glycine max
transcript GLYMA08G06010.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G06010.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv17s0000g02210.t01 (Vitis vinifera), 5'ss of exon 2
GTCAGATCCTCCTTTATCCGCACAAA-ATGACATTGTAGAATCTGATATAGAGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatgcatg---tgttatgtatg----tatggttaatg------tccatgcctcaacaaatctgtaattttaatgtatttgcag
     |       | |   |    |  |||| ||||| || |||||||| || |||||| |  |||||||||| || ||||||||||| ||||| ||||||||  |   |  |     || ||   |||    |  |||| ||       | ||  | | || | | |||    | | || |  ||||||
-ATGTAGTGAAGATGACAAGTTTGAGGATGATATTGTTGAGTCTGATATTGAATTGGATGACACTGATGTTGTGGAGCCTGATAATGATCCTCCACAAAAGgtaggtggtaaaaagaatgatagagatgaagttgaggttgatcatatgtttcagacttaaaaagaactgcttgtattatttggttgcag
















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|193362811|gb|FK327441.1|FK327441
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|21888905|gb|BQ742118.1|BQ742118
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|192298877|gb|FG987622.1|FG987622
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|308222667|gb|HO760642.1|HO760642
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|12773394|gb|BG238321.1|BG238321
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|254343946|gb|GR857702.1|GR857702
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|192299227|gb|FG990710.1|FG990710
EST:     AGTTGGATAATGCTGATGTTGCTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|254315121|gb|GR830114.1|GR830114
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|254324847|gb|GR834272.1|GR834272
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|298196303|gb|HO044694.1|HO044694
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|193574246|gb|FK527883.1|FK527883
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
EST: gi|18730076|gb|BM525667.1|BM525667
EST:     AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAG                         ATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA
genomic: AGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatg ... gtatttgcagATGGGAGATCCTTCTGCTGAAATAACGGAAGAACAAAGGGATGCTGCACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCAGATCCTCCTTTATCCGCACAAAATGACATTGTAGAATCTGATATAGAGTTGGATAATGCTGATGTTGTTGAACCTGATAATGACCCTCCTCAAAAGgtgtgctatgcatgtgttatgtatgtatggttaatgtccatgcctcaacaaatctgtaattttaatgtatttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC