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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgtttaggttag...

Basic information

species Zea mays
transcript GRMZM2G359735_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 5'ss of exon 1
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttga-attgatgaaggtagtatccttgtttaggttag
|||| || ||||||||||| || ||||| |||||||||||||||||||| || |||||||| || |||||||||||||||||||| |||||||| ||||||||||||| ||||||||||  ||||| | ||   |||||||| ||           ||   |||  |    || |     |||| |  || || | ||  |
TCTGCGTGTACTGCCCCGGAGGCCCCGACTCCGACTTCGAGTACAGCACCCAGTCCTACACCGGCTACGAGCCCACCAGCATGCGCGCCATTCGAGCAAGgtgatttacctcactggctactgatgtcacttggaaatactataccacctgtgagatgagctgcacggcgatgctttctctagtgttgtt-ttgaagtatg

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA06G18150.1 (Glycine max), 5'ss of exon 1
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgt--gatttagctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgtttaggttag---
|||| |||||||||||||| || || || ||||||||||||||||| || || || ||||| || || || || ||||||||||||||  |||| || ||||  | ||||  | | |   |||   |   | |     | || | || |||   || |   | ||  |   |   | ||  || |  |  | ||  | | |    
TCTGCGTCTACTGCCCCGGGGGACCTGACTCCGACTTCGAGTACAGTACCCAGTCTTACACCGGTTATGAACCAACCAGCATGCGTGCAGTTCGTGCGAGgtagggtttatgttagtt-ttgtcttttgtgttagggtaaacgaaac-tgt---ttttaagagtgaatagttgagtcaaattaatccctatattctgttgatttt

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA04G36790.1 (Glycine max), 5'ss of exon 1
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgt--gatttagctca--ctggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgtttaggttag---
|||| |||||||||||||| || || || ||||| ||||||||||| || || || ||||| || ||||| || ||||||||||| || ||||| || ||||  | ||||  | |   | |   |   ||     | |||||   ||  ||      | |   | ||  |   |   | ||  || |  |  | ||  | | |    
TCTGCGTCTACTGCCCCGGGGGACCTGACTCCGATTTCGAGTACAGTACTCAGTCTTACACTGGTTACGAACCAACCAGCATGCGCGCAATTCGTGCGAGgtagggtttatgttagttttgtcttctgtgttag-ggtaaatggaactgat------tttaagagtgaatagttgagtcaaattaatccctatattctgttgatttt

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 1
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgt--ttaggttag----
| ||||| || ||||| || || || ||||| || || |||||||| || || || ||||| ||||||||||||||||||||||| || ||||| || ||||    |   ||  | | | || ||     |      |  |  |    |  ||  ||| ||     ||| | ||      || | |   ||  ||   |||     
TTTGTGTTTATTGCCCTGGAGGACCTGATTCTGATTTTGAGTACAGTACACAGTCGTACACTGGATACGAGCCCACCAGCATGCGCGCGATTCGTGCTAGgtagggtttttctttaggttttaattttatt------tgttgtattgatctctgtttggatgatgggaaatcataggaaaaggaactaagtcttttcattaatgaa

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: EDO97260 (Chlamydomonas reinhardtii), 5'ss of exon 5
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagctcactggctgttgatgccgctgataaatactacaca-----tgtaccttcttgtattgcttgaattgat-------gaaggtagtatcct-tgtttaggttag--------
                     | ||||| || ||||| ||||||||||| || || |||||||| |||||||||||||||||| | ||||| |||||  ||| |     |  ||  || | |   | || ||   | |||  |        |||| |      |   |   | | || |       || || |      | ||     | | |        
---------------------GCCCCGACTCGGACTTTGAGTACAGCACTCAGTCGTACACGGGGTACGAGCCCACCAGCATGAGGGCCATACGGGCGCGGT-ACGACCCGTACGTGCAGgtacgggcg-tgcggagtacggcttggggggtgtagccgtccatccggggggtagtggtcgtgtgtgagggcaacgggttctgcgggcgctggtgggggca

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: EFJ21486 (Selaginella moellendorffii), 5'ss of exon 1
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgtttaggttag
|||||||||||||||| || || || ||||| |||||||| || ||||| || |||||||| || || || || || |||||||| || ||||| ||||||| | ||   |       | || ||  |  |  |   ||  | | |   |                                                  
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGCGAGCAATTCGAGCAAGgtaaattctatagtc--tttttcatttctttttttgctagcaaaaaaaaattcag---------------------------------------------

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: EFJ27088 (Selaginella moellendorffii), 5'ss of exon 1
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgtttaggttag
|||||||||||||||| || || || ||||| |||||||| || ||||| || |||||||| || || || || || |||||| | || ||||| ||||||| | ||   |      || || ||  |  |  |   ||  | | |   |                                                  
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGAGAGCAATTCGAGCAAGgtaaattctatagtc--cttttcatttctttttttgctagcaaaaaaaaattcag---------------------------------------------

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
lower sequence: EFJ27078 (Selaginella moellendorffii), 5'ss of exon 1
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgattt-----agctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgtttaggttag
|||||||||||||||| || || || ||||| |||||||| || ||||| || |||||||| || || || || || |||||||| || ||||| ||||||| | ||       ||   |   |  |  |   |||   ||| |  | |   |                                                    
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGCGAGCAATTCGAGCAAGgtaaattctatagtctttttcatttctttttttgctagcaaaaaaaaaatcag----------------------------------------------------

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|149056996|gb|EE156553.2|EE156553
EST:     CAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAG                         GTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCT
genomic: CAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagc ... tatattttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCT