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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatgaccgccaaatgtatgcatctttgtgattattattaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC

Basic information

species Glycine max
transcript GLYMA06G14030.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 4
gtaacatgaccgccaaatgtatgcatctttgtgattattattaacatttcactgtattaacag--tgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
||||  ||  ||  |    ||   |    | |  |||  || || | |  | ||  |||| |   || | ||| ||||||  |||||||||||||| | ||  |||| |||||| ||||||||||||| ||  | || ||||| || ||||||||||| ||||| |||||||| |||||
gtaa-gtggtcg--agtgataattaagcatatacttag-atcaatagtcaattg-gttaataaactgctctgc-tgcagAGAGTGCAAGGGCTGCTCTAAATTTGTCGGGAACCGTGCTTGGATATTATCCTGTCAGGGTGCTGCCATCAAAAACTGCGATTGCACCTGTTAACCCAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G044246_T02 (Zea mays), 3'ss of exon 4
gtaacatgaccgc-caaatgtatgcatctttgtgattatt-----------attaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
|||| ||  ||      |   |||  ||  | || ||| |           ||  ||  || |  |  | || |   | |      |||| ||||||||||||||| |||| ||||| |||||| ||||||||||||| ||  | |  || || |  ||||||||||| ||||| || || ||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatggggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTATCAATGTTCTGCTGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G376619_T01 (Zea mays), 3'ss of exon 5
gtaacatgaccgc-caaatgtatgcatctttgtgattatt-----------attaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC-------------------------------------------------------------------------------------
|||| ||  ||      |   |||  ||  | || ||| |           ||  ||  || |  |  | || |   | |      |||| ||||||||||||||| |||| ||||| |||||| ||||||||||||| ||  | |  || ||||| ||||||||||| ||||| || || ||   |||                                                                                     
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagagggtgcaagggctgctctgaatctgtcaggaaccgtgcttggatattatcctatcaatgttctaccgtcaaaaactgc-attgcaccagTCAACGAAACATTCCTACCCAGGGTATGCAAACCTTCCGGAACCAACATGCTTGTCTTAAGTTCATGGCTCAATGTTCATGCTCTATCTGATATG

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G349794_T01 (Zea mays), 3'ss of exon 5
gtaacatgaccg---ccaaatgtatgcatctttg-tgattatt--------attaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
|||| ||  ||    ||||   | |     |||| | | |||         ||  ||| || |  |  | || |   | |       ||| ||||||||||||||| |||| ||||| |||| ||||||||||||||| ||  | |  || ||||| ||||||||||| ||||| || || |||  |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgagtgaaaaacatcgatgtccaagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACATGCTTGGATATTATCCTGTCAATGTTCTACCGTCAAAAACTGCCATTGCACCAGTCAATGAAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G456149_T01 (Zea mays), 3'ss of exon 6
gtaacatgaccg---cca--aatgtatgcat-------ctttgtgattattattaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
|||| ||  ||    |||  ||||| |  ||       || ||||      ||  ||  || |  |  | || |   | |      |||| ||||||||||||||| |||| ||||| ||||||  |||||||||||| ||  | |  || || || ||||||||||| ||||| || || ||   |||
gtaatatatccatatccaacaatgtttcaatttacttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACCGAGCTTGGATATTATCCAGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G069102_T01 (Zea mays), 3'ss of exon 4
-------------gtaacatgaccgccaaatgtatgca-tctttgtgattattattaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
              |  ||  |      | | |    | ||| ||| ||    ||  ||  || |  |  | || |   | |      |||| |||||||| |||||| |||| ||||| |||||| ||||||||||||| ||  | |  || || || ||||||||||| ||||| || || ||   |||
gtaatatatccatatcccaccatgtttcagtttgcttactctatgtaatgg--atctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGAGCTGCTCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAAGGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 6
gtaacatgaccg---ccaa--atgtatgcatctttgtgattattattaacatttcactgtat------taacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC-
|||| ||  ||    ||||  |||| |   | |   |  |   | | |    |  ||||| |      | | |   | |      |||| ||||||||||||||  |||| ||||| |||||| ||||||||||||| ||  | |  || || || |||||| |||| ||||| || || ||   ||| 
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAA-CTGCCATTGCACCAGTCAAAGAAACA

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
gtaacatgaccg---ccaaatgtatgcatctttg-tgattatt--------attaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
|||| ||  ||    ||||   | |     |||| | | |||         ||  ||| || |  |  | || |   | |      |||| ||||||||||||||| |||| ||||| |||| | ||||||||||||| ||  | |  || ||||| ||||||||||| ||||| || || ||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G175541_T02 (Zea mays), 3'ss of exon 4
gtaacatgaccgc-caaatgtatgcatctttgtgattatt-----------attaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
|||| ||  ||    | |   |||  ||  | || ||| |           ||  ||  || |  |  | || |   | |       ||| ||||||||||||||| |||| |||||  ||||| ||||||||||||| ||  | |  || || || ||||||||||| ||||| || || ||   |||
gtaatatatccatatacaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatggggtgaaaaacatcgatgtcctagAGGGTGCAAGGGCTGCTCTGAATCTGTCAAGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACAAAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G132286_T01 (Zea mays), 3'ss of exon 3
gtaacatgaccg-------ccaaat----gtatgcat-ctttgtgattattattaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
|||| ||  ||        ||| ||     | ||| | |||||||      ||  ||  |||| ||  | |  |   |      | |||| ||||||||||||||| | || ||||| ||||| ||||| |||||||| ||  | || || || || ||||||||||| ||||| || || ||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccatgttccagAGGGTGCAAGGGCTGCTCTAAATCTGTCAGGAACTATGCTCGGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
-------------gtaaca--tgaccgccaaatgta-----tgcatctttgtgatt-attattaacatttcac-tgta-ttaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
              ||||   ||||||    |||||     |||||| |  ||  | |  |||    ||| |  | || |||||| |  ||||| ||||||||| ||  |||||||| |||   || | ||||| |||||||| ||||| ||  ||||||||||||||||||||||||| ||||| |||||||| |||||
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC

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|14990104|gb|BI315777.1|BI315777
EST:     GGATCCTAATTCTATTCTCCGGTTTGCCTTCATTGAGTTTACAGACGAAG                         AAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACC
genomic: GGATCCTAATTCTATTCTCCGGTTTGCCTTCATTGAGTTTACAGACGAAGgtaacatgac ... gtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatctttgtgattattattaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
                                tattaac  putative branch site (score: 1)
           attattattaacattt  TA-rich tract