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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaaggatttaagttttcccattcgtacagacgagatagtggcgtttacttataaagttgcgtttaaatgaatctccttttctgcttagagttttcggactgtcccttttgtagatggtgcatactgtttcggtgtgtgaactataatgaagcggttagttctttattttagGTCTGGCAACCGGGTGTAGATGCACTGGAAGATGGGGAGGAGCTTCAGTTTGATCCTGAGGCTTATAATTATCTCCGAGGTTTTGGCATTGGCTGGTCTT

Basic information

species Zea mays
transcript GRMZM2G458888_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G458888_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g03990.1 (Oryza sativa), 3'ss of exon 2
gtgaggaaggatttaagttttcccattcgtacagacgagatagtggcgtttacttataaagttgcgtttaaatgaat---ctccttttctgcttagagttttc---------ggactgtcccttttgtagatggtgcatactgtttcggtgtgtgaact---------ataatgaagcggttagttctttattttagGTCTGGCAACCGGGTGTAGATGCACTGGAAGATGGGGAGGAGCTTCAGTTTGATCCTGAGGCTTATAATTATCTCCGAGGTTTTGGCATTGGCTGGTCTT
|||||   | |||||  |   || |||  ||||  | | ||     | |    || |  ||| ||  | | | | |     ||  | | || ||||  ||||          || || |   ||    || |   ||| | || | | ||   ||  ||         | | |||   | |||||  ||  | | |||| |||||||| || || ||| |||||||||| ||||||||||| ||||| |||||| ||||||| |||||||||||||| |||  |||||||||| | |
gtgagagggcatttacatg--ccaattattacaagcaa-atgcacacata-gtttttttagtcgcagtgagagggaaaggttcgatgtgtgattagttttttttctccttttggtctataatttcctaagctaaggcaaattgctcctgtcactgcccttcgaaagaaacactgacctgattagtatttcttgtcagGTATGGCAACCTGGCGTGGATACACTGGAAGAGGGGGAGGAGCTCCAGTTCGATCCTCAGGCTTACAATTATCTCCGAGGGTTTAACATTGGCTGGCCAT

upper sequence: GRMZM2G458888_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g03822.1 (Oryza sativa), 3'ss of exon 2
gtgaggaaggatttaagttttcccattcgtacagacgagatagtggcgtttacttataaagttgcgtttaaatgaatctccttttctgcttagagttttcggactgtcc-cttttgtagatggtgcatactgtttcggtgtgtgaactataatgaagcggttagttctttattttagGTCTGGCAACCGGGTGTAGATGCACTGGAAGATGGGGAGGAGCTTCAGTTTGATCCTGAGGCTTATAATTATCTCCGAGGTTTTGGCATTGGCTGGTCTT
                                                                            | |  |||||| | || ||||||       |   ||   | | || |  | |     | |  |  |      | | |||  || || ||  ||  ||| |||| |||||||| ||||| ||| |||||||||| ||||||||||| ||||| |||||| ||||||| ||||||||| |||| |||  |||||||||| | |
----------------------------------------------------------------------------tttttttttct-cctatagttttaatttcctaagctaaggcaaattgctcctgtcactgctcttcgaatgaaacactgacccgattggtatttcttttcagGTATGGCAACCTGGTGTGGATACACTGGAAGAAGGGGAGGAGCTCCAGTTCGATCCTCAGGCTTACAATTATCTCAGAGGGTTTAACATTGGCTGGCCGT
















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|211400551|gb|FL164775.1|FL164775
EST:     CTGAAGCGTCTTCATCGTCCAATCATGCGGTTGCCTCTGGTCCGGCTAAG                         GTCTGGCAACCGGGTGTAGATGCACTGGAAGATGGGGAGGAGCTTCAGTTT
genomic: CTGAAGCGTCTTCATCGTCCAATCATGCGGTTGCCTCTGGTCCGGCTAAGgtgaggaagg ... tttattttagGTCTGGCAACCGGGTGTAGATGCACTGGAAGATGGGGAGGAGCTTCAGTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcatactgtttcggtgtgtgaactataatgaagcggttagttctttattttagGTCTGGCAACCGGGTGTAGATGCACTGGAAGATGGGGAGGAGCTTCAGTTTGATCCTGAGGCTTATAATTATCTCCGAGGTTTTGGCATTGGCTGGTCTT
                                          ttctttatttt  CT-rich tract
                                      ttagttctttatttta  TA-rich tract