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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacatggactaggatttcatattgtcatctgatgttcctatatcatagtttaagattgttttatttgttatagttattgttatcttatgcttttaacgaggacaagctcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCCGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCC

Basic information

species Glycine max
transcript GLYMA20G38030.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38030.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G032505_T02 (Zea mays), 3'ss of exon 3
gtgacatggactaggatttcatattgtcatctgatgttcctatatcatagtttaagattgttttatttgttatagttattgttatcttatgcttttaacgaggacaagctcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCCGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCC
                                                | | |||     |   |        |  |    ||     ||| | ||   |||   |||   | |    |  |   |  ||   | || ||  |      |  |  ||| ||||||| || || || |||||||||||||| || |||||||||||| |||| || |||||||||||||| || || || ||||| ||| | ||  | |||||  
------------------------------------------------aatctaaagcaatgaaa--------aactgccttttatgcatggtctt---gagtttaagtaatcaaattaactgctgtaaaatcttagtttcttg-----tcttgatgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCTGGTGATCTGGTTGGAGTCAATAAAGATAGCTACCTTATACTAGATACAT

upper sequence: GLYMA20G38030.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgacatggactaggatttcatattgtcatctgatgttcctatatcatagtttaagattgttttatttgttatagttattgttatcttatgcttttaacgaggacaagctcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCCGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCC
                                            | | | ||  | |    ||  || | |||  ||  |   |||||   || ||        |    ||    | ||| | |  | ||       |||     |   || | | |||||||||| ||||||||||| |||||||| || || || ||||| |  || ||||| |||||  ||||||| |||||||| ||||| ||||| || ||||||||| 
-------------------------------------------gtgagacttccaaacccattctttagatatgttttctac-atctt---ctctt--------ccgtttcccgtttcatgtctgagcaaat----acttttgttttcgttatgtggactgcagACCATCTTTCTACCAGTTGTTGGACTCGTGGATCCTGATAGTTTGAAACCTGGTGACTTGGTTGGAGTTAACAAAGATAGCTACTTGATTTTGGATACCT

upper sequence: GLYMA20G38030.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 3'ss of exon 3
gtgacatggactaggatttcatattgtcatctgatgttcctatatcatagtttaagattgttttatttgttatagttattgttatcttatgcttttaacgaggacaagctcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCCGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCC
                                                              ||| |  | | |  | |  || | || |  ||  ||| |  ||    ||||| | |||        ||     |  ||| | ||  ||  | ||||||| ||||||||||||| |||||||||||||| ||||||||||| |||||||| || |||||| ||||||| || ||||| ||||| ||||||||||| |||||  
-------------------------------------------------------------attaatgctcacatgtgtgtttcttttgtaattgaaac-attacttattctta-ttcatcaaaaaaaaataa-aacattacttattcttgttcttgactgtagACAATCTTTCTGCCTGTTGTTGGGCTCGTTGACCCTGATAAGTTAAAGCCTGGTGATTTGGTTGGGGTGAACAAAGATAGCTACTTAATCTTAGATACTT

upper sequence: GLYMA20G38030.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ37626 (Selaginella moellendorffii), 3'ss of exon 3
gtgacatggactaggatttcatattgtcatctgatgttcctatatcatagtttaagattgttttatttgttatagttattgttatcttatgcttttaacgaggacaagctcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCCGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCC
                                                                                || |  |||| | ||   |  |    |  |   ||  |  ||||       | |||   |   | ||||  | |     || ||||||| ||||| || || |||||  | || || ||   ||   ||||||| ||||| || || ||||| |||||||| || ||||||||||||||||| |
--------------------------------------------------------------------------------gtaagtttattcatt---caggagtgaagtggaagctctcttttt-----tcctga---tgccactgttcgcctcg---tgtagACAATTTTTCTCCCAGTGGTTGGTTTGGTGGATCCGACCACTCTAAAACCGGGTGACCTTGTGGGTGTGAACAAGGACAGCTACTTAATCTTGGATACAC

upper sequence: GLYMA20G38030.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ15061 (Selaginella moellendorffii), 3'ss of exon 3
gtgacatggactaggatttcatattgtcatctgatgttcctatatcatagtttaagattgttttatttgttatagttattgttatcttatgcttttaacgaggacaagctcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCCGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCC
                                                                                || |  |||| | || |     ||         |||  |   ||      | ||   | | ||     | |  ||    || ||||||| ||||| || || |||||  | || || ||   ||   ||||||| ||||| || || ||||| |||||||| || ||||||||||||||||| |
--------------------------------------------------------------------------------gtaagtttattcattcaggagtga---------agtggaagcttt-----cttttttcctgatgccactgttcttctcgtgtagACAATTTTTCTCCCGGTGGTTGGTTTGGTGGATCCGACCACTCTAAAACCGGGTGACCTTGTGGGTGTGAACAAGGACAGCTACTTAATCTTGGATACAC

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|6566718|gb|AW234350.1|AW234350
EST:     ACTCACAAAGGAAGGGAGAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
EST: gi|207832509|gb|GD804823.1|GD804823
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
EST: gi|209727224|gb|BW663197.1|BW663197
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
EST: gi|192298921|gb|FG987666.1|FG987666
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
EST: gi|192294338|gb|FG987267.1|FG987267
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
EST: gi|192317513|gb|FK008965.1|FK008965
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
EST: gi|209718510|gb|BW662655.1|BW662655
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGC
EST: gi|207770236|gb|GD740968.1|GD740968
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCCGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCC
                                           ttttgac  putative branch site (score: 3)
                                    tgttttctttt  CT-rich tract
                             ttaataatgttttctt  TA-rich tract