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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaactagtggtttatgtggccatttgttgtgtgggtcatggatggattttctaacactgtctggtgtctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACT

Basic information

species Zea mays
transcript GRMZM2G134396_T02
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 18
gtataaacta--gtggtttatgtggccatttg----ttgtgtgggt---------catggatggattttctaacactgtct-ggtg------tctgctct-----agTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACT
||||| | |    | ||| || | || ||||     |||| |   |           ||  |   |||| |  |  ||| | | |       | ||||||     |||| |||||||| |||||||||||||||| ||| ||||  || ||||||||||| ||||||||||||||||||||||||||| ||||||| |||||||||
gtatagattgctattgttcatttagcaattttgattttgttttcatatttttctctctgcctattttttttctccttgttttgataagacattttgctcttgtatagTCACACTGGATTGGGAGAAACTACTACAAAAGAGGTCATGATGGCAATGACATTCACCAGACAAATGTTCCTCACATCAGGATTGAATTCCGACACACT

upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 17
lower sequence: PP1S168_82V6.1 (Physcomitrella patens), 3'ss of exon 17
------------------------------gtataaactagtggtttatgtggccatttgttgtgtgggtcatgg---atggattttctaaca---ctgtctggtgt----------ctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACT
                               |   || |  | |    ||||  | | |||||| |   |||  |   ||| | | |  |||    |||     |||          ||| |  |||| |||||| | || |  || || |||| ||||||||| ||||||||||| |||||  |||||||||| ||||||||  | || || || || ||    
gtgtagccttaactttttctcagtttgtgaattcgaattcatcgcccttgtgttc-tatgttgtttcaatcacagtcgatgcaatgttcaacttatctgatcaatgtggccgtgtcactgatgcagTCGCACTGGCTTGGAAAGAATTATTACAAAAGGGGTCCTGAGGGCAATGATATCCATAAGACAAATGTCCCTCACATGCGCGTGGAGTTCCGTCATCAG
















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|14203330|gb|BG837007.1|BG837007
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|67028452|gb|CO457201.1|CO457201
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGNGTCCTGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|16925558|gb|BM078626.1|BM078626
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|78026552|gb|DV494939.1|DV494939
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|50336749|gb|CO531875.1|CO531875
EST:     AAATCGCTAGAAATTCTGTTTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|71299097|gb|DR785545.1|DR785545
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|149090162|gb|EE179462.2|EE179462
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|211424036|gb|FL301688.1|FL301688
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGG
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGG
EST: gi|33090962|gb|CF050956.1|CF050956
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|32931798|gb|CF036610.1|CF036610
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|78121620|gb|DV540004.1|DV540004
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|211281929|gb|FL464725.1|FL464725
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|4885898|gb|AI677018.1|AI677018
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|211424040|gb|FL301692.1|FL301692
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
EST: gi|71772852|gb|DR970775.1|DR970775
EST:     AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG                         TCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC
genomic: AAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAGgtataaacta ... tctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgttgtgtgggtcatggatggattttctaacactgtctggtgtctgctctagTCTCACTGGATCGGGAGAAACTACTACAGAAGGGGTCCGGAGGGCAATGACATCCACCAGACAAATGTTCCTCACATCAGGGTTGAATTTCGACACACT
                           ttctaac  putative branch site (score: 1)
                                             tctgctct  putative PPT
                        attttctaa  TA-rich tract