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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttttatcttctattctttgtagattcttgatactatttatctcttttgggttgttgattttactatgaaaagatgatgctaattggtattttgttgctgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGGAAACAGGGTCCTAAAACTCCCCTCCCTGATCTTGTCACAATCCATTCTC

Basic information

species Glycine max
transcript GLYMA10G26890.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 5
gtttttttatcttctattctttgtagattcttgatactatttatctcttt---tgggttgttg--attttactatgaaaagatgatgctaattggtat--tttgttgctgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGGAAACAGGGTCCTAAAACTCCCCTCCCTGATCTTGTCACAATCCATTCTC
                         | || |  |||  ||  |||  |||   |    |||||   | |   | ||| |   |||   |  ||  ||     || | ||   |   ||||||| || || |||||||| ||||| ||||||||||||||||| ||||| || || || || |  |||||  | || |||||||| || |||||| | |
-------------------------gtttgtacataaaatccatccgtttgaataaaatgttgctgtctccttgtgatagcttgaatttttttcttagaagctgcttcttgttttcagGGTGTGCTGGGTATTAAGGTCAAGATTATGCTTGATTGGGATCCGAAGGGCAAGCAAGGACCAATGACTCCTTTACCGGATCTTGTTACCATCCATGCCC

upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttttttatcttctattctttgtagattcttgatactatttatctcttttgggttgttgattttactatgaaaagatgatgc-taattggtattttgttgctgcctcat--agGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGGAAACAGGGTCCTAAAACTCCCCTCCCTGATCTTGTCACAATCCATTCTC
                      ||   ||||| | | |    | || |||   |      ||| |||  |    ||||  ||  |||   | || | |||  |  |   |  ||||||| |||||  | |||||||||||||||||||| ||||| || ||||| ||||| || || |  || ||  | |||||| |||| |  |||||| | |
----------------------gtcagttcttcacagtggaaacctgtttcttgaatcacattctacc-tagtgagatcttgtgtaacctgaatctggttaatcacatgtgcagGGTGTGCTTGGTCTCAAGGTGAAGATCATGCTTGACTGGGACCCCAAGGGCAAACAAGGACCGATGACACCATTGCCTGATGTTGTGATCATCCATACAC

upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 3'ss of exon 5
----------------------gtttttttatcttctattctttgtagattcttgat-actatt-tatctcttttgggttgttgattttactatgaaaagatgatgctaat-tggtattttg-ttgctgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGGAAACAGGGTCCTAAAACTCCCCTCCCTGATCTTGTCACAATCCATTCTC
                       | | || ||  |   || | |  | || ||  |  | |    |   || |  || |  ||   || | |   |     |  || | || |  |   ||| ||||   |  | ||||||| ||||| || ||||| ||||||||||||||||||||||| ||||| || || || || ||||| || ||||||||||||||||| |||||  |||
gtttgcttcactcacccagttgatctgttcatgcttctttttgttaacatcctcaaccattgcggtggttcatacggttgcttaccttcattgcaattgtgtcctgatcatgttctggattgcttgccatcaaacagGGTGTACTTGGTATCAAGGTCAAGATCATGCTTGATTGGGATCCCAAGGGAAAGCAAGGCCCCAAAACGCCTCTCCCTGATCTTGTCACCATCCACACTC

upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 5
-------gtttttttatcttctattctttgtagattcttgatactatttatctcttt-tgggttgttgattttact-atgaaaagatgatgctaattggtattttgttgctgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGGAAACAGGGTCCTAAAACTCCCCTCCCTGATCTTGTCACAATCCATTCTC
          |  ||    ||  |   | |    || ||  |||||   |  | ||  | | | || | | || |  | |  ||  ||| |   |    || |||| |      | | |||| || || ||||||||||||||||||||||| || |||||||| |||||||| || || || |  ||||| || || ||| | || || || ||    |
gtacacaagatgcttgatgtccgtcagtagctcctttttcgtactagaaagatattgattgatagtcggtgttcccgaagtgaatctgaagtggaggattactttggtat--gtttacagGGCGTGCTGGGCATTAAGGTGAAGATCATGCTCGACTGGGATCCAAAGGGGAAGCAAGGACCCATGACTCCACTTCCCGATGTAGTGACTATTCACATGC

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|21256674|gb|BQ453562.1|BQ453562
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGACACATGTGCTCCTGAGACAG                         TGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|298195932|gb|HO044323.1|HO044323
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAG                         GGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|33387986|gb|CA851193.1|CA851193
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAG                         GGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|7590784|gb|AW706456.1|AW706456
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAG                         GGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|15813066|gb|BI785341.1|BI785341
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAG                         GGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAA-TGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|21256892|gb|BQ453780.1|BQ453780
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAT                         TGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|6726858|gb|AW311277.1|AW311277
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAG                         GGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|21993919|gb|BQ785447.1|BQ785447
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAG                         GGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
EST: gi|6725216|gb|AW309615.1|AW309615
EST:     CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAG                         GGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG
genomic: CTGTCAAAGATTACATTGACTCTGCAGTGAGACATGTGCTCCTGAGACAGgtttttttat ... tgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgattttactatgaaaagatgatgctaattggtattttgttgctgcctcatagGGTGTTCTTGGCATTAAGGTGAAGATCATGCTTGATTGGGATCCTAAGGGGAAACAGGGTCCTAAAACTCCCCTCCCTGATCTTGTCACAATCCATTCTC
                        tgctaat  putative branch site (score: 2)
                                            ctgcctc  putative PPT
     ttttactatgaaaa  TA-rich tract