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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC

Basic information

species Glycine max
transcript GLYMA13G43680.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 16
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
    |||    ||||  |   | || |    | ||   ||||   |  | |||| | |||        ||   ||| || |  |||||| ||||| |||||| | ||| | || |||||||||||||||||||||||||||||||| ||| | ||| | || ||||| ||| ||||||| || || 
----gtgtgttttct--tgataatactgcctgctt---attgtc-tggtgttgaattcttgaactaacatatttttcttgttgcagTGTCATGGGGTACACATTACTTCTTAGTTTGATTGAGTACAAGACACTTGTGATGCGTGGGGATATTGAACGTGCAAATGATATTTTACCATCCATACCA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G095348_T01 (Zea mays), 3'ss of exon 16
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaa-tcttgactacttttctgtttatcaattt--tttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
    |||    ||||   |  |  | |      |||   ||| |  |  |  ||   | || | ||  || ||  |    ||    |||| | || || |||||| | ||| | || ||||||||||||||||| |||||||||||||| |||||||||   || ||||||||| || |||| || || 
----gtgcgctttct--ctaaaacaatgtttcctttcttttgtaacatctgctgttaatttctgtgactaacatataagcttgatacagTATCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
|||||    | | | || |   |  |||  |  ||    || || | || |    |    || ||   |  | |||||| |  ||||||  |||| || ||  | ||  | || |||||||||||||| ||||||||||||||||| |||||||||   || |||   ||| ||||||| || || 
gtaagcagca-tgcagcatacctacttctgatcttc---ttaca-tgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G086015_T01 (Zea mays), 3'ss of exon 1
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
      | |  || |      |  | |      |||   ||| || |    ||   | || ||||  || ||| |   ||  | |||||| || || |||||| | ||| | || ||||||||||||||||| |||||||||||||| ||||||||    || ||  ||||| || |||| || || 
------gtatgttttctcgaaaacaatgcttcctttcctttgtagca--tctgttaatttctctgactaacaaatagcttggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 16
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
      | |  || |      |  | |      |||   ||| || |    ||   | || ||||  || ||| |   ||  | |||||| || || |||||| | ||| | || ||||||||||||||||| |||||||||||||| ||||||||    || ||  ||||| || |||| || || 
------gtatgttttctcgaaaacaatgcttcctttcctttgtagca--tctgttaatttctctgactaacaaatagcttggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCT

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G448913_T01 (Zea mays), 3'ss of exon 5
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
      | |  || |      |  | |      |||   ||| || |    | |  | || ||||  || ||| |   ||  | |||||| || || |||||| | ||| | || ||||||||||||||||| |||||||||||||| ||||||||    || ||  ||||| || |||| || || 
------gtatgttttctcgaaaacaatgcttcctttcctttgtagcatctatta--atttctctgactaacaaatagcttggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 16
gtaagtgaaacttctgcttggattattcaaa---gttttaaattgcagtaatcttgactacttttctgtttatcaatttttttt---ctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
||| ||    |||    |  | |||||  |    ||||||  |||||   |  |    | ||    | |||  |  ||| ||       |||||| || ||||| || |||||  | ||| ||||||| |||||||| ||||||||||| || |||||||| || |||||| ||||| ||||  |||| || 
gtacgttc--ctttatatatgtttatttgagactgttttatcttgca--tacataatttgctaacatatttccctttttcttgggaatgcagTGTCATAGGATATACCCTGCTGCTTAGCCTGATTGAATACAAGACTCTTGTGATGCGAGGCGATTTGGATAGAGCCAATCAAATTTTACCTACAATTCCT

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
|||||||   |||    |||  |  ||  |   || | ||||   ||    |  ||  |   |||||   |  |||| |   | ||||||||| || |||||  || |  ||||| |||||||||||||||| ||||||||||| |||||||| || |  |||| ||||||  ||||  |||| || 
gtaagtg---cttagatttgtgtgtttatataattgagattgttctagaagtttctgatg--ctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
|||||   |  || | ||   || |||   |    |   ||| |     |||    |||| | |||  |    ||| |  |  ||||||||| ||||||||  | |||||||| ||||||||||||||||| |||||||||||||| |||||||||  ||| |||||| |  |||| ||||| || 
gtaagcagatgttttactgttatgattgctaacaatgttttgtaa----cttactgacttctgtgtccac---tttatgattacagTGTTATTGGATACACTTTACTTTTAAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGAGATTTGGAACAGGCTAATGAAGTCTTACCTTCAATTCCT

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgttta-tcaattttttttct------cagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
|| |||| |  ||  ||    |         |       |||  ||| |  | ||  ||||  | || | |   |||||  | |      |||||| |||||||||||  | ||| | || ||||||||||||||||| |||||||||||||||||  ||||| ||||||||||| || |||| ||||| |||
gtgagtggacttttggcagaaagggggagtggagggtggttgttgtattgctaacatctttattattaagttggtttttccttttcaatgcagTGTCATGGGATACACGTTACTTCTCAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGTGACCTGGAACGGGCCAATGAACTTTTACCTTCAATTCCC

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttt---tctgtttatcaattttttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
|| || ||   |      || | |  |  ||  |      |   ||  |  | | |  | |   | | |||||   || | ||   ||||||||||||||| ||  | ||| | |  ||||||||||||||||||||||| |||||||| || ||  || | || | ||||||| |||| |  || || 
gtgagggagcttgggagctgcacttctgcaatctgactgcttttgttcttgtaattgatctaaatttatttat--gttatcttatgcagTGTTATGGGATATACCTTACTTCTCAATTTGATTGAGTACAAGACACTTGTAATGCGTGGAGACTTTCAACGTGCAAGTGAAATTTTACCTTTGATTCCT

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|298199623|gb|HO043500.1|HO043500
EST:     GGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA                         TGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGT
genomic: GGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaa ... tttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC
                 tcttgac  putative branch site (score: 3)
                          cttttctgtttatcaa  putative PPT
                           ttttctgtttatcaat  TA-rich tract