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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcaattcttctgtaatagttgttgtgctttatattcagaactgataatgaatggcttctgatttcaatctgacgcaatgaatgtactggatgtttgcagTCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGTCTTCCACTGCTGAATAATGGTTACTATCGAGATTTACTTAGTGATTATG

Basic information

species Glycine max
transcript GLYMA07G06780.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G06780.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g43380.1 (Oryza sativa), 3'ss of exon 4
ctcaattcttctgtaatagttgttgt--gctttatattcagaactgataatgaatggcttctgatttcaatctgacgcaatgaatgtactggatgtttgcagTCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGTCTTCCACTGCTGAATAATGGTTACTATCGAGATTTACTTAGTGATTATG
   ||||  |     |||  | | |   ||   ||||     |||| |    |||           | |   |||  |||||||  |  |   | |    ||||    ||||||||||| || ||   ||||||  |||||||| |||||||||||||||||||||| ||||| |||||  ||||| | ||| |||| | ||
-gtaattgatgaaacatatatatggctagccaaatataattgactgtttccaaatattccaatgacttacattgat-caatgaagtttatttttttgattagTCTTCAAAAGGTCGAAGGCCTGGCGCAGATGACATTGATGCTTCTTCTCGTCTTCCACTGCTGAACAATGGGTACTACAGAGATATTCTTGGTGAATTTG

upper sequence: GLYMA07G06780.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G053047_T02 (Zea mays), 3'ss of exon 10
------ctcaattcttctgtaatagttgttgtgctttatattcagaactgataatgaatggcttctgatttcaatctgacgcaatgaatgtactggatgtttgc-agTCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGTCTTCCACTGCTGAATAATGGTTACTATCGAGATTTACTTAGTGATTATG
       | || | || |    || | | |       |||       ||   ||  |||   || ||||       | | |     ||| ||||     ||    ||||    |||||||||||||||||    || ||| |||||||| |||||||||||||||| || ||||||| ||||||  ||||| | ||| |||| | ||
tttcggtttaaattttgttggttactagcta-atggcataacttagcctagaaa--aatatattatgat----ggataatgttgataatttacttctctttcattagTCTTCAAAAGGTCGAAGACCAGGAGCGGACGATATTGATGCTTCTTCTCGTCTTCCACTTCTCAATAATGTTTACTACAGAGATATTCTTGGTGAATTTG
















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|15813193|gb|BI785468.1|BI785468
EST:     GATCCTGGCCTTTTCTACATAAAAAATCTCTTTATCGAGGAATTGGCCTG                         TCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGT
genomic: GATCCTGGCCTTTTCTACATAAAAAATCTCTTTATCGAGGAATTGGCCTGgtaagttggg ... atgtttgcagTCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGT
EST: gi|6718603|gb|AW306250.1|AW306250
EST:     GATCCTGGCCTTTTCTACATAAAAAATCTCTTTATCGAGGAATTGGCCTG                         TCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGT
genomic: GATCCTGGCCTTTTCTACATAAAAAATCTCTTTATCGAGGAATTGGCCTGgtaagttggg ... atgtttgcagTCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatgaatggcttctgatttcaatctgacgcaatgaatgtactggatgtttgcagTCCGGTAAAGGTCGAAGACCAGGGAGAGATGATGTTGATGCTCCTTCTCGTCTTCCACTGCTGAATAATGGTTACTATCGAGATTTACTTAGTGATTATG
                      atctgac  putative branch site (score: 3)
                atttcaat  TA-rich tract