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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgcgcactgcccttggcgtgcgccctgctacgttactccgggacccgctgccggactaggttttgggtttcattatctgtttgtcttcgcgtcgattaggtggtgtgtggcgcgatctgacgcgggtttgtttgtttatcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCCTACGGTACCCTGAATGACTACAAGA

Basic information

species Zea mays
transcript GRMZM2G171745_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171745_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g30840.4 (Oryza sativa), 3'ss of exon 1
gttcgcgcactgcccttggcgtgcgccctgc-tacgttactccgggacccgctgccggactaggttttgggtttcattatctgtttgtcttcgcgtcgattaggtggtgtgtggcgcgatctgacgcgggtttgtttgtttatcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCCTACGGTACCCTGAATGACTACAAGA
||    |     |||  | |   ||| | || | ||   | ||| |  |||| ||  |  |||| || ||||||        |     ||   | ||       || | |      |||||| | |   ||| |||        |  |||||||||||| |||||||| |||||||| |||||| ||||||| ||||||||||| || ||  |||| ||||||||||
gtataagggac-cccccgcctctcgctccgcctgcgccccgccgcg--ccgc-gcgtgtttagggttagggttttgggggtggaccacctctcc-tcccccctctgattt------cgatctaatgtcagttcgtt--------gatgcagCTCACTGGAACGCAGTATGCGTCGTCTCTGGACGTGCTCCGCCTCTTCGCCTATGGGACATTGAAGGACTACAAGA
















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|13178371|gb|BG349629.1|BG349629
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211178527|gb|FK980685.1|FK980685
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|78118434|gb|DV536820.1|DV536820
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211178524|gb|FK980682.1|FK980682
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211180924|gb|FK980686.1|FK980686
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|86472725|gb|DY239095.1|DY239095
EST:     CGGCCCTCTTCGCCTTCTCAGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCAGGGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCCCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211178519|gb|FK980677.1|FK980677
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211180926|gb|FK980688.1|FK980688
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|71427328|gb|DR808378.1|DR808378
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|148943925|gb|EC889005.2|EC889005
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|148972927|gb|EE023942.2|EE023942
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|78081417|gb|DV509829.1|DV509829
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|74242379|gb|DT650293.1|DT650293
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211178522|gb|FK980680.1|FK980680
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|149089443|gb|EE178684.2|EE178684
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211178525|gb|FK980683.1|FK980683
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|76931006|gb|DV172592.1|DV172592
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|5268890|gb|AI770854.1|AI770854
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211180929|gb|FK980691.1|FK980691
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211178518|gb|FK980676.1|FK980676
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|29129753|gb|CB380457.1|CB380457
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|211180931|gb|FK980693.1|FK980693
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|78112153|gb|DV530549.1|DV530549
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|50339563|gb|CO534689.1|CO534689
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCGCGGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
EST: gi|67021495|gb|CO450244.1|CO450244
EST:     CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAG                         CTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC
genomic: CGGCCCTCTTCGCCTTCTCCGAGCTCCTCACCCTCCCGGCCCTCTCCAAGgttcgcgcac ... atcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgattaggtggtgtgtggcgcgatctgacgcgggtttgtttgtttatcggcgcagCTCACTGGCACGCAGTACGCGTCGTCACTGGACTTGCTCCGGCTCTTCGCCTACGGTACCCTGAATGACTACAAGA
                      atctgac  putative branch site (score: 3)
                                      tttgtttat  TA-rich tract