Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgttatgcacttaattttgtaacatgtatgtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG

Basic information

species Glycine max
transcript GLYMA13G42800.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 2
gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgttatgcacttaattttgtaacatgtatgtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG
                     | ||||           |   ||      |   || || |||||| |  |  |  | || |  |||  | ||    | |   ||||||   |   |    |||   ||  | |||||    || ||  | ||||  ||||||||||| ||||||||||| || || ||||||||||| ||||| |||
---------------------gtaagtaccac-acactatctaagt---tatgtaggtttcttgtt-taaatctcttgttct--catagaagtcaattta--tatgcagAGCGCCAGTCGGAGT---GAACTTGAGAGACAAGATTACCCGATTGCCAGGCATCCTGAATTCCGTTACAAGACTGAATTTCAGAGTCATGAACCTGAG

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgttatgcacttaattttgtaacatgtatgtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG
                     | ||||| |    | |  | ||     | || |   || |||| |      | ||| | ||       ||  | ||| |   |||  |||   ||  |   |  | ||  | ||||||   || |||  | ||  |||||||||||||||||||||||| || || ||||||||||| ||||| |||
---------------------gtaagtgctacactat--ataagttctataatc---tttcttgct------taaatctcgtg-tgcccatagt-gctaatgtatgt-gcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 2
gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgt-tatgcacttaattttgtaacatgtat-gtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG
                  ||||||  |     |||  ||  |||     || ||   |||| | | ||| ||  |   |    ||||| | | ||||| |    | | |   |   ||  |  || |  |||   ||||  |  ||  |||||||  | ||||||||||| || || |||||||| |||||||| || ||||||||||||
-----------------gtatgcatattgaactgta-caccaaagtctgcagactttttccctctgtattcagatggcta---aacatattttgtttgttttttcttcctttagCATGCTTGTAGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAG

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 4
gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgttatgcacttaattttgtaacatgtatgtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG
||| | |     ||| | | || ||  |||||| ||              | |  |  |     | ||    ||  || | |    |   ||  |||||     | |||    ||||| | || || ||  | ||    |  || ||| | | ||  |||||||| ||||| ||||| |||||||||||||||||||| || || |||
gtatgtcca--ctttacct-tgtaatcgtttttctg--------------atatgggatttggatcat---tttggttatatgttgttgttgcatgctgtggattacagAGCAGTGGAACCAGAAGAGAGCTTGAAGAAGCTGATTAT-CCACTG--AGGCATCCAGAGTTTCGTTATAAAACAGAGTTTCAGAGTCATGACCCTGAG

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgttatgcacttaattttgtaacatgtatgtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG
    || |   |||| ||| ||||||    ||||| || ||||||           ||    ||| | |||||     ||| || ||||            || | |||||||| || || || | |||| | |||  |  ||| ||  |  |   ||||||||||||||| || || |||||||| ||||||||||| |||||||||
--gtgagttcctttttcttctgcaaga---tttgtttcgaaaaaatgtt-------atgtgctgtaacgcactc----ttgcaaaatgtt-----------actttcagCATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGT---TAGGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAG

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|193625400|gb|FK575218.1|FK575218
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
EST: gi|14258469|gb|BG881377.1|BG881377
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
EST: gi|15286432|gb|BI470323.1|BI470323
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
EST: gi|193333352|gb|FK300385.1|FK300385
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
EST: gi|208313579|gb|GE116513.1|GE116513
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
EST: gi|213605094|gb|DB956399.1|DB956399
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
EST: gi|209700206|gb|BW656297.1|BW656297
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
EST: gi|213614308|gb|DB958612.1|DB958612
EST:     GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG
genomic: GTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactga ... aaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattccttgttatgcacttaattttgtaacatgtatgtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG
                        ttgtaac  putative branch site (score: 2)
                  ttaattttgtaacat  TA-rich tract