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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtagtggaatgaggctggaacccatcaatatcacttgtagagaaggggagcaaattttttattggtcaagattctcatgtaataattttttcctttcagTTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGCTATGTTAGTTCCAAAGACAATCTTATGATTCTGATGAATCTCTTAAGG

Basic information

species Zea mays
transcript GRMZM2G351417_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G351417_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g39630.1 (Oryza sativa), 3'ss of exon 7
---agtagtggaatgaggctggaacccatcaatatcacttgtagagaaggggagcaaattttttattggtcaagattctcatgtaataattttttcctttcagTTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGCTATGTTAGTTCCAAAGACAATCTTATGATTCTGATGAATCTCTTAAGG
        || ||     |||       |  ||       ||| |   |   |  |  |||| || |  ||   | | | || |  || ||||  || ||||||| |||||||| |||||||| |||||||| ||   | |||| |||||||| ||||||||||| ||||| |||||||||||||| ||||||||||| || 
cttttccttgtaaaagtactgttttattttgatgctgtgagtacact-gtacactatgttttctaattttctgaagt-taatatt-tacttttcccccttcagTTCTTGGGAGACATGCTGCTTGATAGATCCAACTCTACAGTCATGATGCGTTATGTTAGTTCAAAAGATAATCTTATGATTCTCATGAATCTCTTGAGA

upper sequence: GRMZM2G351417_T03 (Zea mays), 3'ss of exon 3
lower sequence: EFJ36360 (Selaginella moellendorffii), 3'ss of exon 7
agtagtggaatgaggctggaacccatcaatatcacttgtagagaaggggagcaaattttttattggtcaagattctcatgtaataattttttcctttcagTTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGCTATGTTAGTTCCAAAGACAATCTTATGATTCTGATGAATCTCTTAAGG
                             ||||| |      ||   |        || || ||| |||     |||     | ||| |||   |   || |  | || |||||||| ||||||| ||||||   |||||||||||||||||||||    || ||||| || |||   ||  ||||||||||  |  ||
----------------------------gtatcaatcactttgagacg-------cttctttttgttca-----ctc-caccaaaatctttgtttgctagCTTCTCGGGGATATGCTCCTGGATAAATCAAACACTGCAGTGATGATGCGCTATGTCGTGTCAAAAGAGAACCTTCGAATCATGATGAATCTTCTGCGG

upper sequence: GRMZM2G351417_T03 (Zea mays), 3'ss of exon 3
lower sequence: EFJ35844 (Selaginella moellendorffii), 3'ss of exon 7
agtagtggaatgaggctggaacccatcaatatcacttgtagagaaggggagcaaattttttattggtcaagattctcatgtaataattttttcctttcagTTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGCTATGTTAGTTCCAAAGACAATCTTATGATTCTGATGAATCTCTTAAGG
                             ||||| |      ||   |        || || ||| |||     |||     | ||| |||   |   || |  | || |||||||| ||||||| ||||||   |||||||||||||||||||||    || ||||| || |||   ||  ||||||||||  |  ||
----------------------------gtatcaatcactttgagacg-------cttctttttgttca-----ctc-caccaaaatctttgtttgctagCTTCTCGGGGATATGCTCCTGGATAAATCAAACACTGCAGTGATGATGCGCTATGTCGTGTCAAAAGAGAACCTTCGAATCATGATGAATCTTCTCCGG

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|60348049|gb|DN215022.1|DN215022
EST:     CTAGGTTGCTGTCATCAACCAACTATATAACAAAAAGGCAAGCTATCAAG                         TTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGC
genomic: CTAGGTTGCTGTCATCAACCAACTATATAACAAAAAGGCAAGCTATCAAGgtactgctac ... ttcctttcagTTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGC
EST: gi|60338005|gb|DN204978.1|DN204978
EST:     CTAGGTTGCTGTCATCAACCAACTATATAACAAAAAGGCAAGCTATCAAG                         TTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGC
genomic: CTAGGTTGCTGTCATCAACCAACTATATAACAAAAAGGCAAGCTATCAAGgtactgctac ... ttcctttcagTTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggagcaaattttttattggtcaagattctcatgtaataattttttcctttcagTTGTTGGGAGATATGCTGCTGGATAGATCAAATGTTGCAGTGATGATGCGCTATGTTAGTTCCAAAGACAATCTTATGATTCTGATGAATCTCTTAAGG
                                      taattttttcctttc  CT-rich tract
                          attctcatgtaataat  TA-rich tract