Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcccgaaactacaataagattgcatatttcctcctttttgttagtctaatattgccccaattcagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG

Basic information

species Glycine max
transcript GLYMA01G04930.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 3'ss of exon 4
gtaagtgcccgaaactacaataagattgcatatttcctcct------------ttttgttagtcta-atattgccccaatt---cagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG
||||||        ||  |||  |||| | |||| |   |             | |||| | | |  |||||   | | |    ||||| |||||||| || |||||||| ||||| |||||||||||||| || | |||||| ||||| || ||||||||||| || |||||||| |||||||| |
gtaagttttaagtccttgaattggattacgtattgcacaccacacgattcacatcttgtaattttgtatattatgctactcttgcagGATTACAATGCAAAACTCTCAGATTTTGGGCTTGCCAAAGATGGCCCTGTAGGTGACAAAACTCACGTGTCTACTCGAGTAATGGGAACATATGGTTATG

upper sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 3'ss of exon 4
----gtaa--gtgcccgaaactacaataagattgcatatttcctcct---ttttgttagtctaatattgccccaat--------tcagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG
    | ||   ||   || | |  ||  | |||  | || | |   |   || |   | ||| ||||| |   |||        ||||||||||||||| || ||||| || ||||| || || |||||||| || || ||||||||||| ||||| |||||||| || |||||||| ||||| || |
gtatgcaaccatgtttgagaatcaaaacatattagaaatgttcatttagattgtaacattctcatatttcttaaatattcattttcagGACTACAATGCAAAACTCTCTGATTTTGGACTAGCTAAAGATGGCCCTGAGGGTGATAAAACACATGTATCTACTCGAGTCATGGGAACTTATGGATATG

upper sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G028037_T02 (Zea mays), 3'ss of exon 4
gtaagtgcccgaaact--acaataagattgcatatttcctcctttttgttagtctaatattgccccaattcagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG
|||||   |   |     |   ||| | |    |||    |   | | || | |||| ||        |||||||||| || || || ||||| || ||||| ||||| |||||||| || || ||||||||||| |||||||| ||| |||| |||||||| ||||| || |
gtaagcaactatattgaaatgttaaaaatattcattcatacaaatgtatttg-ctaacatattttt--ttcagGACTATAACGCAAAACTCTCTGATTTTGGACTTGCTAAAGATGGCCCTGAGGGTGATAAAACACATGTGTCAACTAGGGTCATGGGAACATATGGATATG

upper sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
----gtaagtgcccgaaactacaataagattgcat-atttcctcctttttgtta-gtctaatattgccccaatt---cagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG
    || | ||      | ||      |  ||| | ||   ||   |  || ||  ||  || ||       ||   ||||| || || || |||||||| || ||||| ||||| ||||| || || | |||||||||||| ||||| |||||||| || |||||||||||||| || |
gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG

upper sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G150806_T01 (Zea mays), 3'ss of exon 4
----gtaagtgcccgaaactacaataagattg-catatttcctcctttttgtta-gtctaatattgccccaatt---cagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG
    || | ||      | ||      |  || |  |||   | | |  ||||   ||| || ||       ||    |||| || ||||| || ||||| || ||||| ||||| ||||| || || | |||||||||||| ||||| |||||||| || |||||||||||||| || |
gtaagttaatgaataggattatgcagtgtgtgtctcattatttacatactgttgcatcttatgttatattgcttgtatagGAGTATAATGCAAAACTCTCCGATTTTGGGCTTGCAAAAGACGGACCTGTAGGTGATAAAACTCATGTCTCTACTCGAGTAATGGGAACCTATGGATATG

upper sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtgcccgaaactacaataagattgcatatttcctc------ctttttgttagtctaatattgccccaattcagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG
||||||     |||||   ||||  |  | | | ||  |      | ||   |   |   ||     || | ||||||| ||||||||||| || || || ||||| ||||| ||||||||||| || || ||||| || ||||| ||||| || || |||||||| ||||| || |
gtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG

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|120493846|gb|EH222013.1|EH222013
EST:     GACCAGTAATATATAGGGATTTTAAAACTTCAAACATATTACTAGATGCA                         GACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAA
genomic: GACCAGTAATATATAGGGATTTTAAAACTTCAAACATATTACTAGATGCAgtaagtgccc ... cccaattcagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaataagattgcatatttcctcctttttgttagtctaatattgccccaattcagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG
                                 gtctaat  putative branch site (score: 3)
                                         ttgcccc  CT-rich tract
                        tttttgtta  TA-rich tract