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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtcttttataattgctatttagttcattgtatcagtgcagtaatatatagatgtttaacaaaattagtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTCAATAATCGACAATATCGAG

Basic information

species Glycine max
transcript GLYMA01G45380.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G45380.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g20630.1 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------------gtactgt---cttttataattgc-tatttagttcattgtatcagtgcagtaatatatagatgtttaacaaaatt----agtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTCAATAATCGACAATATCGAG
                                                     |||||||   ||  |||| |||  | |||| | | || ||  |  ||  |||||| |   ||||| | |  | |    |  ||  ||||||||| || |||||  |||| |||||||| ||||||||||||||||| || || ||||| ||||| ||||
gtgaatttaccttgtgatgtgttggttattgttatatttatcagtaaattgaagtactgtaaactagtatatttgaatgtttattaccttttaataccgctttaatatctttgtgtttgatatgagttacaatgttgcgtagATTGGGAAAGGATCAAGAGGAGATGTTACTATATTGCCTACTCTTGTTGTGAACAATCGGCAATACCGAG
















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|6724788|gb|AW309187.1|AW309187
EST:     CAGACGCCGATACTGATAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAA                         ATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC
genomic: CAGACGCCGATACTGATAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactgtctt ... gtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC
EST: gi|193548893|gb|FK508364.1|FK508364
EST:     CAGACGCCGATACTGATAATCCTGTTTCGAAAGAAGAGCAAGATGCCCAA                         ATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC
genomic: CAGACGCCGATACTGATAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactgtctt ... gtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC
EST: gi|151394579|gb|EV264450.1|EV264450
EST:     CTGATAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAA                         ATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC
genomic: CTGATAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactgtctt ... gtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC
EST: gi|193513745|gb|FK468675.1|FK468675
EST:     CAGACGCCGATACTGATAATCCTGTTTCGAAAGAAGAGCAAGATGCCCAA                         ATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTAGGT
genomic: CAGACGCCGATACTGATAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactgtctt ... gtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGT-GGT
EST: gi|193610199|gb|FK565763.1|FK565763
EST:     CAGACGCCGATACTGATAATCCTGTTTCGAAAGAAGAGCAAGATGCCCAA                         ATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC
genomic: CAGACGCCGATACTGATAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactgtctt ... gtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcattgtatcagtgcagtaatatatagatgtttaacaaaattagtttttgtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTGGTCAATAATCGACAATATCGAG
                               gtttaac  putative branch site (score: 3)
                                              tttttgt  putative PPT
                   taatatatagatgttt  TA-rich tract