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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttctgattcctcttttatgtttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtag

Basic information

species Zea mays
transcript GRMZM2G331032_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g46510.1 (Oryza sativa), 5'ss of exon 8
TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttctgattcctcttttatgtttgtaatt-ttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtag
|||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| || ||||| || |||||||||||||| |||||||||||| | || |||| |||| || ||| ||||| |  || ||||   || |||| |    ||||       ||||   ||| |||| |        | | || | ||||||||
TTGATGATGTCACATTCCACCAGTGTGTCAACTTGACAAGATTTAACTCAGAAAAGACAGTCAGCTTTGTGCCGCCAGACGGTGAATTTGAATTGATGAAgtaa-tattatgatccctcctt-atgcttgtattagttttcccctgtagtgacattt-ttatt-------ctttacttggcttttgacc------acaaaattctgttgtag

upper sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 8
lower sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 8
TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttctgattcctcttttatgtttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtag
|||||||||||||||| ||||||||||| ||| | || ||||| ||||| || ||||| || ||||| || ||||| || || || |||||  ||||||||||| | |||  ||  |       ||||   |||| |     | | ||  |  ||   |||||| |  |   || ||  |                               
TTGATGATGTCACATTTCACCAGTGTGTGAACCTGACCAGATTCAACTCCGAGAAGACTGTTAGTTTTGTACCACCGGATGGAGAGTTTGAACTGATGAAgtaagttttcgaatgtccac----tgttgcaaattgttctggtaccaa--atgtg---tattaactttatgatgtctcag-------------------------------

upper sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv02s0012g00910.t01 (Vitis vinifera), 5'ss of exon 8
TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttctgattcctcttttatgtttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtag-
|||||||||| || ||||||||||| || || || || || ||||||||||||||||| |||||||| |||||||| || ||||||||||| ||||||||||||         || ||||| | |  |  |   ||   ||           ||  | |||  | |||  | |   |  ||    |||  |||   || |||    | | | 
TTGATGATGTTACTTTCCACCAGTGCGTAAATTTGACGAGGTTTAACTCAGAAAAGACCGTCAGTTTTGTGCCACCAGATGGTGAATTTGAATTGATGAAgtaagctcaaaattttctcttgtttactcatgcgttcaacctc--------tttttattatgtattgccttgtaaattagt----agtgatgaagtattaatgacatcttga

upper sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S54_156V6.1 (Physcomitrella patens), 5'ss of exon 8
TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttctgattcc-tcttttatgtttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctg--ggttttcagttgtgatagataaatt--tgttgtag----------------------------------------------------------------------------------
||||||| |||||||||||||||||||| ||  | || ||||| ||  | || ||||||||||||||||| ||||| || || || |||||  ||||||||||| |  |     |   |  |||  |   | |||   || | | |   |    | ||| |   | || |     ||||     |||| |  | || | |||| ||  || | |||                                                                                  
TTGATGACGTCACATTCCACCAGTGTGTGAATCTTACGAGATTCAATGCCGAGAAGACAGTCAGTTTCGTTCCACCGGATGGAGAGTTTGAACTGATGAAgtaagttcttgagctatgtacttttggccaggaatgaagtgcgttcagttctagttcac-agggagtgtaaccgcgctgtcacctttcggaagaga-acataatttaatgatctagttgatgctactatatcttgcatgcggacagtggtctttacctgcggcacatcctaagctttgagcattttatcaatgcacag

upper sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S197_28V6.1 (Physcomitrella patens), 5'ss of exon 8
TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttctgattcctcttttatgt-ttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtag
|||||||||| ||||||||||| ||||||||  | |||||||| |   | || |||||||||||||| || ||||| || || ||||||||  | ||||||||||| | |||||   | | |  | |  || || |      ||||||      |     || || | |       |  | | |  | || ||  |||   ||         
TTGATGATGTTACATTCCACCAATGTGTCAATCTCACAAGATTCACTGCTGAGAAGACAGTCAGTTTTGTTCCACCCGATGGAGAATTTGAACTCATGAAgtaaat-tcctgatctatgtatcttttactggaagtgaa---ctgctacaattctttctcatgaagttcgtcgactcatgctctcaacttttggaagaagcata--------

upper sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 8
lower sequence: EFJ22278 (Selaginella moellendorffii), 5'ss of exon 8
TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgta------aatcttctgattcctcttttatgtttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtag
| || |||||||| || || ||||| ||||||||||| ||||||||||| || ||||| ||||| || || || || || || ||||| ||| ||||||||||      ||  || ||||        ||  || ||| || | ||  | |  ||   || ||                                                      
TGGACGATGTCACGTTTCATCAGTGCGTCAACTTAACCAGATTTAACTCCGAGAAGACGGTCAGCTTTGTTCCCCCGGATGGAGAATTCGAGCTGATGAAgtactggacaagtttgtgatggtatagctaacttggtacttatatcttttcatatcttttccag-----------------------------------------------------

upper sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 8
lower sequence: EFJ25669 (Selaginella moellendorffii), 5'ss of exon 8
TTGATGATGTCACATTCCACCAGTGTGTCAACTTAACAAGATTTAACTCAGAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgta------aatcttctgattcctcttttatgtttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtag
| || |||||||| || || ||||| ||||||||||| ||||||||||| || ||||| ||||| || || || || || || ||||| ||| ||||||||||      ||  || ||||        ||  || ||| || | ||  | |  ||   || ||                                                      
TGGACGATGTCACGTTTCATCAGTGCGTCAACTTAACCAGATTTAACTCCGAGAAGACGGTCAGCTTTGTTCCTCCGGATGGAGAATTCGAGCTGATGAAgtactagacaagtttgtgatggtatagctaacttggtacttatatcttttcatatcttttccag-----------------------------------------------------

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|18660565|gb|BM500930.1|BM500930
EST:     GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAA                         GTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
genomic: GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttc ... tttgttgtagGTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
EST: gi|6101968|gb|AW126438.1|AW126438
EST:     GAGTTGATGAA                         GTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
genomic: GAGTTGATGAAgtaaatcttc ... tttgttgtagGTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
EST: gi|31354959|gb|CD439316.1|CD439316
EST:     GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAA                         GTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
genomic: GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttc ... tttgttgtagGTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
EST: gi|91054998|gb|EB165416.1|EB165416
EST:     GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAA                         GTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
genomic: GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttc ... tttgttgtagGTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
EST: gi|32935086|gb|CF039898.1|CF039898
EST:     GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAA                         GTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
genomic: GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttc ... tttgttgtagGTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
EST: gi|6021406|gb|AW066334.1|AW066334
EST:     AAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAA                         GTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT
genomic: GAAAAGACAGTCAGTTTCGTGCCACCTGACGGTGAATTTGAGTTGATGAAgtaaatcttc ... tttgttgtagGTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAAT