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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatgttttgttaactgcaatgtatgctagtgttactgtttatttgtaataacactcaaattggttattgcagGTTGTGATATACTTCTTTTACAAGAACCTCACCTTCACTCTTACTCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT

Basic information

species Glycine max
transcript GLYMA18G16990.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G020553_T01 (Zea mays), 3'ss of exon 2
gtataatgttttgttaactgcaatgtatgctagtgttactgtttatttgtaataacactcaaattggttattgcagGTTGTGATATACTTCTTTTACAAGAACCTCACCTTCACTCTTACTCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT
   ||  ||| |  |  ||  | | ||  ||||  | |  ||| |   ||| | |   | | ||    | ||||||||| | | ||||||||| |||||||| || || || || || |||||||| ||||| || ||||||||||| |||||||| ||| | || |||||||| |
--gtatggttatagttgctcaactttaacctagcat-atagttcaaa-gtactgaatatgagatgttctgttgcagGTTATCACATACTTCTTCTACAAGAATCTGACATTTACACTAACTCAGTTCTGGTTCACTTTTCAAACTGGTTTTTCTGGCCAGCGGTTTTATGATGACT

upper sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 22
gtataatgttttgttaactgcaatgta----tgctagtgttactgtttatttgtaataacactcaaattggttatt---gcagGTTGTGATATACTTCTTTTACAAGAACCTCACCTTCACTCTTACTCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT
|| |||  |||   ||  | | |  ||    |     ||  | | ||| |  ||  | |||  |  | |  || ||   |||||| ||||  ||||||||||||||||| || || |||||| | ||||| || ||||| || || |||||||||||||||||||| ||||||||||||||||
gtttaacttttctatatttccgacctaaaaatttctatgaaaatatttttcagtgtttacatactgaataattctttttgcagGTGGTGACTTACTTCTTTTACAAGAATCTTACTTTCACTTTGACTCAATTCTGGTTCACCTTCCAAACTGGGTTTTCTGGTCAAAGATTCTATGATGATT
















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|208322103|gb|GE124678.1|GE124678
EST:     CAGATTTGCTTCTTGTTCATGGCCGATGGTCATATTTGCGAATATGCAAG                         GTTGTGATATACTTCTTTTACAAGAACCTCACCTTCACTCTTACTCAGTTT
genomic: CAGATTTGCTTCTTGTTCATGGCCGATGGTCATATTTGCGAATATGCAAGgtataatgtt ... gttattgcagGTTGTGATATACTTCTTTTACAAGAACCTCACCTTCACTCTTACTCAGTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtatgctagtgttactgtttatttgtaataacactcaaattggttattgcagGTTGTGATATACTTCTTTTACAAGAACCTCACCTTCACTCTTACTCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT
                            taataac  putative branch site (score: 1)
                  tgtttatttgtaataa  TA-rich tract