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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGAATACAAACACATGACGCCTGCTACTGCCCTGGAATATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaagtcctttttgtgtgtccccttccctctacaaggctactgattcaatgcaacttttgtagtactttttttgtaattatttcgttcctcggcatttggattctgtaatttttgcttgcgttgtaagcag

Basic information

species Glycine max
transcript GLYMA05G36020.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G36020.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0016g02890.t01 (Vitis vinifera), 5'ss of exon 6
GTTGAATACAAACACATGACGCCTGCTACTGCCCTGGAATATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaagtcctttttgtgtgtccccttccctctacaaggctactgattcaatgcaacttttgtagtactttttttgtaattatttcgttcctcggcatttggattctgtaatttttgcttgcgttgtaagcag
||||| || || |||||||| |||||| ||||||||||||||||||| ||| |||||||  | |||||| |||| || |||||||||||||||      |   |||  | | | |    ||   |       | | ||  || ||| |||   |||    | || ||||||||  |       |||     |  || |||||||| |                    
GTTGAGTATAAGCACATGACACCTGCTGCTGCCCTGGAATATGTTCGTTCTAGAAGACCACGTGTGCTATTAGCTCCCTCACAGTGGAAGgtaagcagtaaggcttcatttattttgtatttttt-------ggtgct--tttaatacaa---ttgcttaatttattttgtaaa-acggaaaacct----gtagggtttctgtaagt--------------------
















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|208249611|gb|GE048622.1|GE048622
EST:     ATGTACGGTCTCGAAGACCTAGAGCGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208183266|gb|GD984036.1|GD984036
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTNTAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|193346442|gb|FK311726.1|FK311726
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|193621668|gb|FK568554.1|FK568554
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|193393841|gb|FK359918.1|FK359918
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208069085|gb|GD863827.1|GD863827
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTGTAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208302418|gb|GE097033.1|GE097033
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|21638936|gb|BM139982.1|BM139982
EST:     ATGTTCGGTCTCGAAAACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|120533128|gb|EH261261.1|EH261261
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|207752688|gb|GD722748.1|GD722748
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTACAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTT-CAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACT-CCC
EST: gi|208133373|gb|GD930396.1|GD930396
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTNTAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|192302769|gb|FG993789.1|FG993789
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208187070|gb|GD985114.1|GD985114
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTGTAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|192302768|gb|FG993788.1|FG993788
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208264236|gb|GE064356.1|GE064356
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGGAG                         GGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagG-CTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACC
EST: gi|208071910|gb|GD871438.1|GD871438
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAA-CTGTAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCC-
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208233984|gb|GE029541.1|GE029541
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTACAAAACTATAACAAGCGAAGGCCTTCTC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTT-CAAAACTATAACAAGCGAAGGCCTTCTC
EST: gi|207781717|gb|GD754422.1|GD754422
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTGTAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|193324811|gb|FK290151.1|FK290151
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|254318674|gb|GR828618.1|GR828618
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|193328494|gb|FK294710.1|FK294710
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|120533275|gb|EH261408.1|EH261408
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|193538984|gb|FK497296.1|FK497296
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208220451|gb|GE017671.1|GE017671
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208044651|gb|GD841075.1|GD841075
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTACCATACTCCCCC
EST: gi|208120625|gb|GD918012.1|GD918012
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAG                         GCTGTTCAAAA
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGAATACAAACACATGACGCCTGCTACTGCCCTGGAATATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCGTCACAGTGGAAGgtataaccaagtcctttttgtgtgtccccttccctctacaaggctactgattcaatgcaacttttgtagtactttttttgtaattatttcgttcctcggcatttggattctgtaatttttgcttgcgttgtaagcag

- - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG