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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatttagcattcatatttctgaggtgttctgttgtctataatatgtattccttggtgaatgttttactaacatttgtgttgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGTACTGGATGTGTATTTAGAAGGCAGGCATTATATGGTTATGATGCCCCCAAAA

Basic information

species Zea mays
transcript GRMZM2G025231_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025231_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os07g24190.2 (Oryza sativa), 3'ss of exon 6
gtaagatttagcattcatatttctgaggtgttctgttgtctataatatgtattccttggtgaatgttttactaacatttgtgttgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGTACTGGATGTGTATTTAGAAGGCAGGCATTATATGGTTATGATGCCCCCAAAA
|||||||||  |   |||||||||||| |  |||  |    |   ||| || |  |   |    ||||  ||||||||||  |  | ||||||||||||||||| ||||||||||| || || || || |||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||||||
gtaagatttgcc--ccatatttctgagatactctcctacacaagttatttaattttc--ttgcagtttatctaacatttgcttgttacagATCAACATGAAAGGCTTGGATGGTATCCAAGGCCCCATCTATGTTGGTACTGGATGTGTCTTTAGAAGGCAGGCATTGTATGGTTATGATGCCCCCAAAA

upper sequence: GRMZM2G025231_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 10
----------------gtaagatt-tagcattcatatttctgaggtgttctgttgtct-ataatatgtattccttggtg----aatgttttactaacatttgtgttgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGTACTGGATGTGTATTTAGAAGGCAGGCATTATATGGTTATGATGCCCCCAAAA
                 | | |||    ||||  |  | |||   | |||| |  ||| |||| ||  |||   | ||     ||   |    |   |  | |  | | ||||| |||||||||||||| ||||| ||||| || || || |||||||| ||||||||||| || |||||||| ||  |||||||||||||||| || || |
gtgagcatgcacttctttcatattgcctcatttcttctgctgttcttttctttgttctcataacatcaattatcttgtatgccaagactaatttgcaaactctactttccagATTAACATGAAAGGTTTAGATGGCATTCAAGGACCCATATATGTTGGGACTGGATGTGTGTTCAGAAGGCAAGCGCTATATGGTTATGATGCTCCAAAGA

upper sequence: GRMZM2G025231_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
gtaagatttagcattcatatttctgaggtgttctgttgtctataatatgtattccttggtgaatgttttactaacatttgtgttgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGTACTGGATGTGTATTTAGAAGGCAGGCATTATATGGTTATGATGCCCCCAAAA
|||||  |     |    || |||  | || |   ||   ||   ||    ||   |   || ||  ||  | |  ||| | |     |||||||||||||||| ||||| || ||||| || || |||||||| |||||||| ||||| |||||||| |||||||| |||||| ||||||| || ||||
gtaagcctgcagttctccatatctt-gatgctagttttgatagtttagagcttttctatcgattgacttggtcat-tttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA

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|194717185|gb|FK934338.1|FK934338
EST:     GGATTGATCGCCATGACTGATATGCTAACCGGAATGTTGTCTTTTTTGAT                         ATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGT
genomic: GGATTGATCGCCATGACCGATATGCTAACCGGAATGTTGTCTTTTTTGATgtaagattta ... tgttgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtctataatatgtattccttggtgaatgttttactaacatttgtgttgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGTACTGGATGTGTATTTAGAAGGCAGGCATTATATGGTTATGATGCCCCCAAAA
                                 tactaac  putative branch site (score: 0)
     tataatatgtatt  TA-rich tract