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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTAGGGTTTCGGGAATATATGCGATCAGATGGTACCTTTTCATACTTCTTCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactcttaattgcttggaatgttttcaatatctgattgtgctctttgaatttccaccacttgcatcgagcccatatatgttccccttgatgcaaagag...

Basic information

species Zea mays
transcript GRMZM2G032944_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G032944_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os07g23169.1 (Oryza sativa), 5'ss of exon 6
AGTAGGGTTTCGGGAATATATGCGATCAGATGGTACCTTTTCATACTTCTTCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactcttaattgcttggaatgttttcaatat-ctgattgtgctctttgaatttccaccacttgcatcgagcccatatatgttccccttgatgcaaagag-
||| || || |||||||| ||||| |||||||| ||| |||||||||||||| |||| ||||| |||||||||||||||| |||  |||| ||| ||||||||||||  | |   |||  ||||| ||| | | ||  ||    ||      | |   || | |||||    |||  ||  ||  |  |  ||       | 
AGTGGGATTCCGGGAATACATGCGCTCAGATGGCACCCTTTCATACTTCTTCACATTAGATACAGTGAGAGAACTCTTTCATGCCTCTGGACTACTAGAGgtaactcggattgttttgacatgttctcagttttctagttactttccacctttctttgcc-cctgcatgtgcccctcatg-gtagcattcaatattttatga
















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|211229014|gb|FL455773.1|FL455773
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|78024700|gb|DV493087.1|DV493087
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|24763644|gb|CA398816.1|CA398816
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|76914811|gb|DV165697.1|DV165697
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|149085004|gb|EE174514.2|EE174514
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|74246084|gb|DT653998.1|DT653998
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|78124011|gb|DV542395.1|DV542395
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|71759527|gb|DR957464.1|DR957464
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|8368939|gb|BE051884.1|BE051884
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGGGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
EST: gi|6022396|gb|AW067324.1|AW067324
EST:     TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAG                         TTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG
genomic: TCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactctta ... acttctgcagTTGGAGCTGGAATATTGCTGTGTCAAGTCCGTGAACCGAAAGAATGGGAAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTAGGGTTTCGGGAATATATGCGATCAGATGGTACCTTTTCATACTTCTTCTCATTGGATACTGTGAGAGAACTCTTTCGTGCTGCTGGGCTAGTAGAGgtaactcttaattgcttggaatgttttcaatatctgattgtgctctttgaatttccaccacttgcatcgagcccatatatgttccccttgatgcaaagag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT