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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcattttgattgcccttttttcttcttgaacactattttgattgctcttaacttcagatcaaacttcttatgtcttaaaatcttatatcctgtttggatttcag

Basic information

species Zea mays
transcript GRMZM2G133226_T04
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 6
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcattttgattgcccttttttcttcttgaacactattttgattgctcttaacttcagatcaaactt-cttatgtcttaaaatcttatatcctgtttggatttcag
||||||||||||| || |||||||| ||||||||||||||||| ||||| ||||||||  ||  |||    |     | | |||   ||||            | | || | || | |  |  || | ||| |||   |  |||||||| |||
GAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACGgtattattttgatgacctgtttcatattc---ataatatccagatt------------aaaccatatttgccttagcattcatatcctat---ccatttggattccag

upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA17G32030.1 (Glycine max), 5'ss of exon 6
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcattttgattgcccttttttcttcttgaacactattttgattgctcttaacttcagatcaaacttcttatgtcttaaaatcttatatcctgtttggatttcag
| ||| ||||||| || |||||||||||||| ||||||||||||||||   || |||||    |  |  | | || |||       | |    | |||  ||   |  ||| ||||||| |   | | | || |||  | ||          
GGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATGgtaagcttatgatttgtataatggcctgttaaac-------ttacccttttta--ttgtaacgaaatttcttatttgaaatacttttctattttattatag------

upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA14G14360.1 (Glycine max), 5'ss of exon 6
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcattttgattgcccttttttcttcttgaacactattttgattgctcttaacttcagatcaaacttcttatgtcttaaaatcttatatcctgtttggatttcag
| ||| ||||||| || |||||||||||||| ||||||||||||||||   || |   |       |  | | || |||  | ||   |    | |||  ||   |   ||  |||||| |   | | | || |||  | ||          
GGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATGgtaagcttatatattgtacaatggcctgttaaactttctt---acccttttta--ttgtaacagaatatcttatttgaaatacttttctattttattatag------

upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA04G07030.1 (Glycine max), 5'ss of exon 6
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcatttt-gattgcccttttttcttcttgaacactattttgattgctcttaacttcagatcaaacttcttatgtcttaaaatct---tatatcctgtttggatttcag-------------
| ||| |||||||||| |||||||||||||| |||||||| |||||||   |  | |||||       |      | |    | ||||  || ||    |    | | ||  ||| || |   ||  |||||   | |    ||   | ||||                
GCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGTAATGgtaagctgatagattgtatcaaatggcctatcag--ttgtttttttttcttggtaaaagaaagcatgcttgtttttctttttaatctaattgtgatttgaaagaatttttctattatgttatag

upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA06G07120.1 (Glycine max), 5'ss of exon 4
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgta----------tcattttgattgccctttt---ttcttcttgaacactattttgattgctcttaacttcagatcaaacttcttatgtcttaaaatcttatatcctgtttggatttcag
| ||| |||||||||| |||||||||||||| ||||||||||||||||          |  | |  | || ||| |     | || ||       |     |     |||   |||   | || ||   | ||   | ||||   || |  |  |||  ||  ||
GCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATGgtaagctgatagattgtatcaaatggcctatcaaactttttttttttgtaaaagaaagcatgcttgttttctttttaatctaaatgtggtatgaaata--atttttttattgtgttatag

upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: AT4G32272.2 (Arabidopsis thaliana), 5'ss of exon 7
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcattttgattgcccttttttcttcttgaacactattttgattgctcttaacttcagatcaaacttcttatgtcttaaaatcttatatcctgtttggatttcag
| ||||| |||||| | |||||||||||||| ||||||| ||||||||  || |  | |   |   |  ||     ||    |   | |   |||   ||||    |  || || | |  | || ||   |                     
GTAAATCAAGTGGCTTGAATAGCTTTGGCCTTATGTGGTCCAATGgta--atataaactaaacagataact-----aaattgaccctaaacactcaagactt-gctttgaatttgtgagattttcaatgatag-------------------

upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: Vv11s0016g05710.t01 (Vitis vinifera), 5'ss of exon 6
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcattttgattgcccttttttcttcttgaacactattttgattgctcttaacttcagatcaaacttcttatgtcttaaaatcttatatcctgtttggatttcag----
||||||| |||||||||| |||||||||||| |||||| |||||||||  ||   ||| |       ||        | ||   ||   |   | |||| | |   | |||      ||   ||      |  |    |  ||| ||||       
GAAAATCCAGTGGCCTCAGTAGCTTTGGCCTTATGTGGAGCAATGgtaagat---gatag------gtttcaaacagagacagattaattgatttttaaatccttttgaaaaaagaaataaattggggcatatttgtttaattgaatttttcacag

upper sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
lower sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatc-------attttgattgcccttttttcttc-------ttgaacactattttgattg---ctcttaact---tcagatcaaacttcttatgtctt---aaaatcttatatcctgtttggatttcag----------
| |||||||||||||| |||||||||||||| |||||||| |||||||         |||   | |||   | || |||         |||  | | | |||   |     |||||     |    |  ||     ||  | ||   ||||||||||  | | |||   |||             
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag

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|71440135|gb|DR821185.1|DR821185
EST:     GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG                         GACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
genomic: GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcatttt ... tggatttcagGACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
EST: gi|148933234|gb|EC876885.2|EC876885
EST:     GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG                         GACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
genomic: GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcatttt ... tggatttcagGACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
EST: gi|149103657|gb|EE289061.2|EE289061
EST:     GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG                         GACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
genomic: GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcatttt ... tggatttcagGACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
EST: gi|148947033|gb|EC892330.2|EC892330
EST:     GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG                         GACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
genomic: GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcatttt ... tggatttcagGACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
EST: gi|91054598|gb|EB165016.1|EB165016
EST:     GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG                         GACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC
genomic: GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatcatttt ... tggatttcagGACTTGTCTGTGGACCTTCAGTACTGTTATTGACATATATTCAGGGTGACC