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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgattttacatttgaatgcagcaccccgtttgtctagcttatcatgcaaccatcattctccaagttgttcattctcggatgcatggtaatacac...

Basic information

species Zea mays
transcript GRMZM2G169914_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169914_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g19460.1 (Oryza sativa), 5'ss of exon 3
AGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgattttacatttgaatgc---agcaccccgtttgtctagcttat-catgcaaccatcattctccaagttgttcattctcggatgcatggtaatacac
|||| |   | |||||||| ||||| |||||||||||||| |||||| | |||||||||||||||||||| ||||||||||||||| | | | |  | ||   | |     |     |  |||||  |     |   | |||  ||| | |||| |    |    | ||| |   ||| | | | | 
AGGGTGTAATAGCTGGAGGTGCTGCCGGTGTTGTTGTTGAGACAGCTCTGTATCCTATTGATACAATAAAAACCAGGCTTCAGgtatgttaactgcatatggtattctcttaatgtgcaatttgttcattaggtgtctccaaaaatcgtgctcccaaaactc---tttcgaaccaatgtttacata-

upper sequence: GRMZM2G169914_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G31870.1 (Glycine max), 5'ss of exon 4
AGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgattttaca----tttgaatgcagcaccccgtttgt--ctagcttatcatgcaacc-atcattctccaagttgttcattctcggatgcatggtaatacac
|||| |   | || |||||  | ||||| ||||||||||||||||||||||| || || || |||||||| ||  | || |||| | | |  | | |||    ||  |||| ||      | ||||   | |||    ||   ||  || | | |   | |  |  | ||| | ||  ||| |       
AGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATCGACACAATAAAAACACGTCTGCAGgcaggtttttgtgacaaaaattgtaatgaagattaagggttgtgctttgctgtgtattttactgattactgtttga-tgctgaaatcttgaat--atgatgcc----

upper sequence: GRMZM2G169914_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G15150.1 (Glycine max), 5'ss of exon 3
AGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgattttaca----tttgaatgcagcaccccgtttgt--ctagct-tatcatgcaaccatcattctccaagttgttcattctcggatgcatggtaatacac
|||| |   | || || ||  | ||||| ||||||||||||||||||||||| || ||||| |||||||| ||  | || |||| | | |  | | |||     |  |||| ||      | ||||   | ||| | |  |  |   || | | |   | |  |  | ||| | ||  ||| |       
AGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATTGACACAATAAAAACACGTCTGCAGgcaggtttttatgacaaaaactgtaatgaagattaagggttgtgctttgctgtgtattatactgattactgtttga-tgctgaaatcttgaat--atgatgcc----

upper sequence: GRMZM2G169914_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA10G36580.2 (Glycine max), 5'ss of exon 2
AGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgattttacatttgaatgcagcaccccgtttgtctagct----tatcatgcaaccatcattctccaagttgttca----ttctcggatgcatggtaatacac
| ||   | | |||||||| ||||||||||||||||| |||||||||||||| || |||||||| || || ||  | || ||||| |     |||||   |     |         |||||||| |      |   | | ||  |  |      |||    |||    |  ||  ||  ||||        
ATGGTTGCATTGCTGGAGGTGCTGCTGGTGTTGTTGTAGAAACAGCTTTATACCCCATTGATACCATCAAAACTCGACTACAGgtgaaaaccttttattctaatccgtctgtttatgtttgtctggtgagggtgggagggaaggaggaactaggaagccaatcagaaataatcaaatttatgg--------

upper sequence: GRMZM2G169914_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT4G39460.2 (Arabidopsis thaliana), 5'ss of exon 4
AGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgat----tttacatttgaatgcagcaccccgtt-----tgtctagct---tatcatgcaaccatcattctccaagttgttcattctcggatgc-atggtaatacac-----------------
|||||    | || |||||  | ||||| ||||| ||||||||||||||||| || |||||||| || ||||| || ||||||| | |   |     |||| || |   |    ||  |  ||     | |  |  |   ||   | | ||  |  ||    ||  |||| |   |  | | | |   || |                     
AGGGGTTTATAGCAGGAGGTACAGCTGGAGTTGTAGTTGAAACAGCTTTATACCCAATTGATACTATTAAGACTAGACTTCAGGCAGgtcaacgaactttaaatctctgttagacattcttttaactgtatgcaattagctactgtactactttggttaaaaaaagtgttgacctttagttcctaaactagtttgatcttatgatgtaggcag

upper sequence: GRMZM2G169914_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv18s0157g00180.t01 (Vitis vinifera), 5'ss of exon 3
AGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgattttacatttgaatgcagcaccccgt--ttgtctagcttatcatgcaa---ccatcattctccaagttgttcattctcggatgcatggtaatacac-
||||     | ||||||||   ||||||||||||||||||| ||||||||||||| |||||||||||||| || || |||||||   | | | |  ||   ||||| |    |    |  | || |   ||||  ||| |   | | ||||||| |   ||||||||   |  || ||   |||  |  
AGGGTCTTGTAGCTGGAGGTATTGCTGGTGTTGTTGTTGAAGCAGCTTTATATCCAATTGATACAATAAAAACTAGACTTCAGgctggttaactaaac---tgaatactattcttaatcatagtatgctttatattgccaatcctagcattctcta---tgttcatttcagactgaatttaaatctaaa

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|211410757|gb|FL164832.1|FL164832
EST:     TTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAG                         GCTGCACAAGGCGGAAGTAAAATTCAATGGAAAGGCATGTATGATGGGTTA
genomic: TTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgat ... ttttatatagGCTGCACAAGGCGGAAGTAAAATTCAATGGAAAGGCATGTATGATGGGTTA
EST: gi|211312002|gb|FL324783.1|FL324783
EST:     TTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAG                         GCTGCACAAGGCGGAAGTAAAATTCAATGGAAAGGCATGTATGATGGGTTA
genomic: TTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgat ... ttttatatagGCTGCACAAGGCGGAAGTAAAATTCAATGGAAAGGCATGTATGATGGGTTA
EST: gi|88752899|gb|DY537040.1|DY537040
EST:     TTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAG                         GCTGCACAAGGCGGAAGTAAAATTCAATGGAAAGGCATGTATGATGGGTTA
genomic: TTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAGgtaagctgat ... ttttatatagGCTGCACAAGGCGGAAGTAAAATTCAATGGAAAGGCATGTATGATGGGTTA