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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGTGCAACACTTTTTGGATCTATGTTACGTGGAGGTGGAGTGATGACAAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatcatgctcaattgatattcttatttcctgcccatgaccactgtttgagtttctctggtctaattcttctgttgtggatctacatggtgctggtacggcag

Basic information

species Glycine max
transcript GLYMA09G36130.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G36130.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os10g38980.1 (Oryza sativa), 5'ss of exon 4
ATATGTGCAACACTTTTTGGATCTATGTTACGTGGAGGTGGAGTGATGACAAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatcatgctcaattgatattcttatttcctgcccatgaccactgtttgagtttctctggtctaattcttctgttgtggatctacatggtgctggtacggcag
|  ||||||||  | || ||||| ||| |||    || ||| ||    |   |||||||||||||||||||  ||||||| |||||||||||| | ||||||||  |       ||    |  || | ||    ||  | | ||    |  |||  |    | || || |  |  ||   |   ||| |      |||| || |   
AACTGTGCAACCATGTTCGGATCAATGCTACAGAAAGCTGGTGTATCAAATGATATTTATGAGCTTTGTGATATTGATTTAAAAGATTTCAGCCTGCAAGgtatggacagaagacatgataacttgtaatcaattgtacttcacattggaatgatctaactttgtttactattcttggcattattctcc----cactggaacag---

upper sequence: GLYMA09G36130.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G162251_T02 (Zea mays), 5'ss of exon 3
ATATGTGCAACACTTTTTGGATCTATGTTACGTGGAGGTGGAGTGATGACAAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtattta-tcatgctcaattga--tattcttatttcctgcccatgaccactgtttgagtttctctggtctaattcttctgttgtggatctacatggtgctggtacggcag
|  ||||||||| | |||||||| |||||||    || ||| ||| ||    | ||||||| |||||| ||| |||||||||||||||||||| | ||||||||  | | | || | ||| |  |||  | || |  |   ||| |       |  |    || |    ||| |||||| || |       ||   ||    |   ||||
AATTGTGCAACAATGTTTGGATCAATGTTACAGAAAGCTGGTGTGGTGGATGACATTTATGGGCTTTGCGACATTGATTTGAAAGATTTCAGCTTGCAAGgtatgcactgaagcactatttacttatcttaatattttattcatca-------tgcaaccccttta--ttaactcttcttttctc--ctggcaccatgtaaatgaagcag

upper sequence: GLYMA09G36130.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G162251_T01 (Zea mays), 5'ss of exon 3
ATATGTGCAACACTTTTTGGATCTATGTTACGTGGAGGTGGAGTGATGACAAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtattta-tcatgctcaattga--tattcttatttcctgcccatga--ccactgtttgagtttctctggtctaattcttctgttgtggatctaca-tggtgctggtacggcag-------------------------------------------------------------------------------------
|  ||||||||| | |||||||| |||||||    || ||| ||| ||    | ||||||| |||||| ||| |||||||||||||||||||| | ||||||||  | | | || | ||| |  |||  | || |  |   ||| |  | ||   || | |  ||||  | |  | ||       || |  |  |   |   | | || |||                                                                                      
AATTGTGCAACAATGTTTGGATCAATGTTACAGAAAGCTGGTGTGGTGGATGACATTTATGGGCTTTGCGACATTGATTTGAAAGATTTCAGCTTGCAAGgtatgcactgaagcactatttacttatcttaatattttattcatcatgcaacccctttattaactcttcttttctcctggcaccatgtaaatgaagcagattttggacagcaaggtcagcgtcaacgaatcaactttgtctagttcgatccatgcacttccatagcttgatgctaatttccaatcttcactattgtag

upper sequence: GLYMA09G36130.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G30700.1 (Arabidopsis thaliana), 5'ss of exon 4
ATATGTGCAACACTTTTTGGATCTATGTTACGTGGAGGTGGAGTGATGACAAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatcatgctcaa----ttgatattcttatt-tcctgcccatgaccactgtttgagtttct--ctggt-ctaattcttctgttgtggatctacatggtgctggtacggcag----
 | ||||||||| |  | || ||||||||| |   |||||| || ||||||||||| |||||||||||||| || ||| | |||||||||||  | |||||||  | |  |  |  |    || |||    |||  || |  ||   |||  |  |||| | |||  |||    ||  |||  | || ||  |||   |    || | |||  |     
GTCTGTGCAACAGTCATCGGTTCTATGTTAAGGAAAGGTGGTGTTATGACAAATATCTATGAGCTTTGTGATGTCGATCTCAAAGATTTCAGTGTCCAAGgtaagttttgttttagactccttaataactgtatcatcatttcctctaccgtttattgaatatcttcctgacattagctctctttttctgtttctgggtatgccttggacgataagcag

upper sequence: GLYMA09G36130.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0094g00050.t01 (Vitis vinifera), 5'ss of exon 2
ATATGTGCAACACTTTTTGGATCTATGTTACGTGGAGGTGGAGTGATGACAAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatcat--gct-caattgatattctt---atttcctgcccatgaccactgtttgagtttctctggtctaattcttct-gttgtggatct----acatggtgctggtacggcag-------------------
|| || |||||| | ||||| || ||||| |    |||||| || |||||||||||||||||||||||||| |||||| |||||||||| ||  | |||||||  | |  |  | |  ||||  ||| |||   || |  |    |    || |   | || || |||| | |  || |||| | | ||  | |    || |  || || |  |   |                   
ATGTGCGCAACAATGTTTGGCTCCATGTTGCAAAAAGGTGGGGTCATGACAAATATTTATGAGCTTTGTGATGTTGATCTGAAAGATTTTAGTCTTCAAGgtacatgtttttggttataatttttatccttcaaatcttttattgagactcattcccttagcttatctgatatgttttttcttgctctgttttttgtcaccttctgttgttgtgctcggtactttaacatctggcag

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|193534220|gb|FK488661.1|FK488661
EST:     AAATATTTATGAGC-TTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193342463|gb|FK306093.1|FK306093
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|207796620|gb|GD770782.1|GD770782
EST:     TTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: TTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193349410|gb|FK314118.1|FK314118
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193697924|gb|FK640591.1|FK640591
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193344938|gb|FK311564.1|FK311564
EST:     GAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: GAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193401830|gb|FK367063.1|FK367063
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193459852|gb|FK422631.1|FK422631
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|207790491|gb|GD760438.1|GD760438
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|208218018|gb|GE016106.1|GE016106
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|207764181|gb|GD737996.1|GD737996
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193623436|gb|FK576830.1|FK576830
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193385721|gb|FK349403.1|FK349403
EST:     TGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: TGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|207790232|gb|GD762713.1|GD762713
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|207748224|gb|GD721783.1|GD721783
EST:     AATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTT-CAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|208308615|gb|GE104507.1|GE104507
EST:     AAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193493960|gb|FK461816.1|FK461816
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|208283644|gb|GE082400.1|GE082400
EST:     AAATATTTATGAGC-TTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|208314527|gb|GE113863.1|GE113863
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CCTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193557069|gb|FK516170.1|FK516170
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193512649|gb|FK466389.1|FK466389
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagC-TTATGGACAACAAG
EST: gi|208185609|gb|GD986252.1|GD986252
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193726807|gb|FK662779.1|FK662779
EST:     AAATA-TTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193415992|gb|FK376654.1|FK376654
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG
EST: gi|193334835|gb|FK298443.1|FK298443
EST:     AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAG                         CTTATGGACAACAAG
genomic: AAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatca ... ggtacggcagCTTATGGACAACAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATGTGCAACACTTTTTGGATCTATGTTACGTGGAGGTGGAGTGATGACAAATATTTATGAGCTTTGTGACGTTGATTTGAAAGATTTCAGCATACAAGgtatttatcatgctcaattgatattcttatttcctgcccatgaccactgtttgagtttctctggtctaattcttctgttgtggatctacatggtgctggtacggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT