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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatctaaaacatggagcaacttcaagtgcttgtattatctcaatagtgtttgttgaaccactgtgatcgtaagaattgggatgttttttttctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGGTACATTCGCTACATATACAACCGTGTGATATTGGAAAATGCCACTGTTC

Basic information

species Zea mays
transcript GRMZM2G012501_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G012501_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 10
------gatctaaaacatggagcaacttcaagtgcttgtattatctcaatagtgtttgttgaaccac-tgtgatcgtaagaattgggatgttttttttctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGGTACATTCGCTACATATACAACCGTGTGATATTGGAAAATGCCACTGTTC
       || |  |  ||  | |   | ||| || | ||    |  |  |||   |||||   | || | ||| |   |||||       |  | | | |||  ||||| |||||  |||||||||||||||||||||||||||||||||||||||| || || |||||||| ||||||||||||||| |||||||||||||||| |
gttgagaatgttcataatcaatcttttccaattggtagttccttgcc--tagctcttgtttttcaacatttgaaca-gagaatcaa----tcctctctatttgttagATATTGCATCTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGATATATACGCTACATCTACAACCGTGTGATACTGGAAAATGCCACTGTCC

upper sequence: GRMZM2G012501_T02 (Zea mays), 3'ss of exon 8
lower sequence: EFJ08461 (Selaginella moellendorffii), 3'ss of exon 10
gatctaaaacatggagcaacttcaagtgcttgtattatctcaatagtgtttgttgaacc-actgtgatcgtaagaattgggatgtttttt-------ttctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGGTACATTCGCTACATATACAACCGTGTGATATTGGAAAATGCCACTGTTC
                                                   ||||  || | ||  ||| |  |||   |||||| ||||       || |||   |||| |||||  || | ||  | || ||||||| ||| || ||| | |||| ||||||||||||||| ||||| ||||| |||||||||||||| |||||||
---------------------------------------------------gttgtgcccattgctatctt--gaaacaggatgtcttttatcaagattttttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAGTACATTCGCTACATCTACAATCGTGTAATATTGGAAAATGCTACTGTTC

upper sequence: GRMZM2G012501_T02 (Zea mays), 3'ss of exon 8
lower sequence: EFJ15122 (Selaginella moellendorffii), 3'ss of exon 10
gatctaaaacatggagcaacttcaagtgcttgtattatctcaatagtgtttgttgaacc-actgtgatcgtaagaattgggatgttttttttc-------tttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGGTACATTCGCTACATATACAACCGTGTGATATTGGAAAATGCCACTGTTC
                                                   ||||  || | ||  ||| |  |||   |||||| |||| ||       |||   |||| |||||  || | ||  | || ||||||| ||| || ||| | |||| ||||||||||||||| ||||| ||||| |||||||||||||| |||||||
---------------------------------------------------gttgtgcccattgctatctt--gaaacaggatgtcttttatcaagattgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAGTACATTCGCTACATCTACAATCGTGTAATATTGGAAAATGCTACTGTTC

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|67012331|gb|CO441080.1|CO441080
EST:     ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAG                         ATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
genomic: ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAGgtaactacaa ... tctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
EST: gi|74243906|gb|DT651820.1|DT651820
EST:     ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAG                         ATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
genomic: ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAGgtaactacaa ... tctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
EST: gi|32942885|gb|CF047704.1|CF047704
EST:     ATCTTTGTGAAAACAACGAAGACTGTGAATTCACATATCTTTCTAGTCAG                         ATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
genomic: ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAGgtaactacaa ... tctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
EST: gi|67030306|gb|CO459055.1|CO459055
EST:     ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAG                         ATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
genomic: ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAGgtaactacaa ... tctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
EST: gi|32945171|gb|CF049990.1|CF049990
EST:     ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAG                         ATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG
genomic: ATCTTTGTGAATTCATCGAAGACTGTGAATTCACATATCTTTCTAGTCAGgtaactacaa ... tctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtttgttgaaccactgtgatcgtaagaattgggatgttttttttctttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGGTACATTCGCTACATATACAACCGTGTGATATTGGAAAATGCCACTGTTC
                                    tgttttttttctttcg  CT-rich tract
                                   atgttttttttcttt  TA-rich tract