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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttctatacaagttcttttgaagttaaacatcctgtgtgaaaaaaaatttgttgacacattctttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT

Basic information

species Glycine max
transcript GLYMA01G39200.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G39200.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g52420.1 (Oryza sativa), 3'ss of exon 4
----gttcttctatacaagttcttttgaagttaaacatcctgtgtgaaaaaaaatttgttgacacattctttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
    |   | | | |   |   |     |   | ||  | |   |  || ||| ||           || ||  || ||||||||||| || |||||||||||||||||||||||||| |||
gtaagccatccaaaattggagataacacacacatactgcatacatataagaaagttacaaattgacctcctttgttacagGATGGTGACATTATCAACATTGATGTTACTGTTTATCTCAAT

upper sequence: GLYMA01G39200.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g00820.t01 (Vitis vinifera), 3'ss of exon 4
----------------------gttcttctatacaagttcttttgaagttaaacatcctgtgtgaaaaaaaatttgttg-acacattctttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
                      | | |  |   | |||    || |||| |       | |  | |   ||||   ||  ||| | |  | ||||||||||||| ||||||||||| ||||||||||| ||||||||||||
gtctattttacttaaggacttagatttcttgagccagtgtggtt-aagtcattgtgtttttaagtagtcaaatcacttatacaaaattgtcatttgcagGATGGCGATATAATCAATATTGATGTTACCGTTTATCTAAAT
















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|209704050|gb|BW673650.1|BW673650
EST:     CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAG                         GATGGTGATATAATCAACATTGATNGT-ACTGTTTATCTAAATGGCTATC
genomic: CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttcttctat ... ttatttgcagGATGGTGATATAATCAACATTGAT-GTTACTGTTTATCTAAATGGCTATC
EST: gi|12691283|gb|BG157619.1|BG157619
EST:     GTAA-TGAATGCATTTGCCATGGAATACCAAGAT-CCCGTGCTCCTTGAA                         GATGGTGATATTATCAAC
genomic: GTAAATGAATGCATTTGCCATGGAATACCA-GATTCCCGTGC-CCTTGAGgttcttctat ... ttatttgcagGATGGTGATATAATCAAC
EST: gi|151401050|gb|EV270864.1|EV270864
EST:     CTGTAAATGAATGCATTTGCCATGGAATACCACATTCCCGTGCCCTTGAG                         -ATGGTGATATAATCAACATTGATGT
genomic: CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttcttctat ... ttatttgcagGATGGTGATATAATCAACATTGATGT
EST: gi|192305235|gb|FG993973.1|FG993973
EST:     CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAG                         GATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
genomic: CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttcttctat ... ttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
EST: gi|192300116|gb|FG991892.1|FG991892
EST:     CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAG                         GATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
genomic: CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttcttctat ... ttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
EST: gi|51335002|gb|CO978868.1|CO978868
EST:     CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAG                         GATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
genomic: CTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttcttctat ... ttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagttaaacatcctgtgtgaaaaaaaatttgttgacacattctttatttgcagGATGGTGATATAATCAACATTGATGTTACTGTTTATCTAAAT
                               tgttgac  putative branch site (score: 3)
                                         ttctttattt  putative PPT
                   tgaaaaaaaatttgtt  TA-rich tract