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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatgttttgttaactgcaatgtatactagtgtaactgtttatttgtaataacacttaagttggttattgcagGTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT

Basic information

species Glycine max
transcript GLYMA08G40530.1
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G40530.1 (Glycine max), 3'ss of exon 23
lower sequence: GRMZM2G020553_T01 (Zea mays), 3'ss of exon 2
gtataatgttttgttaactgcaatgtatactagtgtaactgtttatttgtaataacacttaagttggttattgcagGTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT
   ||  ||| |  |  ||  | | ||  ||||  ||  |  ||    ||| | |   | |  |    | ||||||||| | | ||||||||| ||||||||||| || || || || || ||||| ||||| || ||||||||||| |||||||| ||| | || |||||||| |
--gtatggttatagttgctcaactttaacctagcata--tagttcaaagtactgaatatgagatgttctgttgcagGTTATCACATACTTCTTCTACAAGAATCTGACATTTACACTAACTCAGTTCTGGTTCACTTTTCAAACTGGTTTTTCTGGCCAGCGGTTTTATGATGACT

upper sequence: GLYMA08G40530.1 (Glycine max), 3'ss of exon 23
lower sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 22
gtataatgttttgttaactgcaatgtata----ctagtgtaactgtttatttgtaataacac-ttaagt--tggttattgcagGTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT
|| |||  |||   ||  | | |  || |        || || | ||| |  ||  | |||   | | |  |  || |||||||| ||||  |||||||||||||||||||| ||||||||| | || || || ||||| || || |||||||||||||||||||| ||||||||||||||||
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|254336296|gb|GR842475.1|GR842475
EST:     CAGATTTGCTTCTTGTTCATGGCCGATGGTCATATTTGCGAATATGCAAG                         GTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTT
genomic: CAGATTTGCTTCTTGTTCATGGCCGATGGTCATATTTGCGAATATGCAAGgtataatgtt ... gttattgcagGTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTT
EST: gi|192301651|gb|FG997607.1|FG997607
EST:     CAGATTTGCTTCTTGTTCATGGCCGATGGTCATATTTGCGAATATGCAAG                         GTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTT
genomic: CAGATTTGCTTCTTGTTCATGGCCGATGGTCATATTTGCGAATATGCAAGgtataatgtt ... gttattgcagGTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtatactagtgtaactgtttatttgtaataacacttaagttggttattgcagGTTGTGATATACTTCTTTTACAAGAATCTCACTTTCACTCTTACCCAGTTTTGGTTTACATTTCAAACTGGGTTTTCTGGTCAGAGATTCTATGATGATT
                            taataac  putative branch site (score: 1)
                    tttatttgtaataaca  TA-rich tract