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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgatttcttggaagatctcccttcgacaatatcacaaagcttgtttttgatctcataatacatgattgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG

Basic information

species Glycine max
transcript GLYMA09G39500.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g51430.1 (Oryza sativa), 3'ss of exon 10
gtgagtgatttcttggaagatctcccttcgacaatatcacaaagcttgtttttgatctcataatacatgattgatgcttttctta--ttaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG
                             |  | | |     |  ||  || |   ||  |  ||  || |     | ||  |||   |||  |  |    |   |   |||||    |||||||||| ||||| | || ||  ||||| ||  |||| ||| |||| || || ||||| ||||||||||| ||||| || |||||||||||||| || |
-----------------------------gtaagttttgtggaaatttattctagacttctggtaattggtgatctcattgtttaagctaagttggttatgctggtgtgcttctcaa-agGTAGCTCGTGGTGACAAGACTGATGAAGACGGCGTCCCCATGTTACTAAAAATTCCACGAATGTTTGATCCATGGGGAGGATACAGCATCATTGGATTCG

upper sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 8
gtgagtgatttcttggaagatctcccttcgacaatatcacaaagcttgtttttgatctcataatacatgattgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG
                                ||       ||    | || || | |        ||  |  ||  ||| ||  |||   ||         ||||   |      |||| || || || || | ||  |  || |||||| | || ||||| || || || || || ||||||||||| |||||||| |||||||||||||| ||||
------------------------------gtaagcgtgtgaaaggggattctgctatttggtggtatcctgaat--tttgctggtta---tagcatgttggtttcttctgcaaatagGTTGCGCGTGGCGACAAGACCGACGAGGATGGTGTGCCCATGCTGCTAAAAATCCCGCGAATGTTTGATCCATGGGGTGGATACAGCATCATTGGCTTTG

upper sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgagtgatttcttgga-----agatctcccttcgacaatatcacaaagcttgtttttgat-ctcataat-----acatgattgatgcttttcttattaaactaatgca-acattttcacttctt------tgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG
|| |||  ||  ||        ||| |  | | | | || |          | ||     | | |||| |        || |  |  ||  | ||||   |  | || |    ||||| | | ||      |  ||||||| || ||||| || || ||||| || || || || |||||||| ||||| ||||| |||||||||||||||||||| |||||||| ||||| ||||
gtaagtttttcttttttgctccagaccatcatgcaagaagactttgttagatattccaactacacatacttatctgtctgctccacactgatattatcggagaattgtacgtcttttcccattttcccacatatagGTAGCCCGTGGTGACAGAAGCGGAGAGGACGGAATTCCAATGCTACTAAAGATCCCACGAATGTTTGATCCTTGGGGTGGCTACAGCATAATTGGATTTG

upper sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
gtgagtgatttcttggaagatc-tcccttcgacaatatcacaaagcttgtttttgatctcataatacatgattgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG
|| |||  |||||   ||  |  |     |  |||||      |    | |  || | |  || |  | |||   ||||   |  |||| |  | |     ||| |   |||| |  |||||||||| |||||||||||||| || |||||||| || |||||||| ||||| || || |||||||||||||||||||| |||||||||||||| ||||
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatg-tttggtacttga-gatctctgctgc-ccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG

upper sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S124_16V6.1 (Physcomitrella patens), 3'ss of exon 10
-------------------------------------------------gtgagt-gatttcttggaagatctcccttcgacaatatcacaaagcttgt--ttttgatctcataatac--atgattgatgcttttcttattaaacta-------------atgcaacattttcacttctttg---cagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG
                                                  ||  | || |||| ||  |    |  ||      | | |||||  | ||  |||| ||| | | |  |  | ||| | |   ||   ||| | | ||             ||   ||  ||  |||| | ||   ||||| ||||| || |||| ||     | ||| ||||| |||||||| || ||  | |||||| | |||||||| |||||||| ||||| |||||||||||||
gtatgttcatcaatctggcttttcctatttaagacgcgcgtttttgaaattgtttcgacttctaggttgtgaactattgagtgctttgacaaatgtcgtctttttcatcacttcaagctgacgatcggtagcttgggtatcacaatacacaagtgctgagatatgacgattgaacttttctgggacagGTTGCTCGGGGAGATAAGACCAATGGAGAGGGTATTCCTATGCTTCTTAAAGTTCCACGTCTTTTTGATCCATGGGGTGGCTACAGTATCATTGGTTTTG

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|254320216|gb|GR829404.1|GR829404
EST:     TGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
genomic: TGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
EST: gi|193668696|gb|FK608216.1|FK608216
EST:     TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGTTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACT
genomic: TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACT
EST: gi|9900391|gb|BE609359.1|BE609359
EST:     TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
genomic: TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
EST: gi|9258837|gb|BE346984.1|BE346984
EST:     CTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
genomic: CTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
EST: gi|193645974|gb|FK593903.1|FK593903
EST:     TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTACCCCTATGCTACTCAAG
genomic: TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
EST: gi|208299697|gb|GE097180.1|GE097180
EST:     TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
genomic: TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
EST: gi|22524144|gb|BU082955.1|BU082955
EST:     TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
genomic: TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
EST: gi|22523945|gb|BU082756.1|BU082756
EST:     TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
genomic: TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
EST: gi|254320215|gb|GR829403.1|GR829403
EST:     TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG
genomic: TCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgatt ... ttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatgattgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG
                         aactaat  putative branch site (score: 2)
                                    cattttcacttcttt  putative PPT
              ttttcttattaaacta  TA-rich tract