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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgattattcctacgcaatctttaacgtggcatttagtcttatttattctttcatattgtcatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT

Basic information

species Glycine max
transcript GLYMA05G32510.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g10100.2 (Oryza sativa), 3'ss of exon 5
gtattttgattattcctacgcaatctt--taacgtggcatttagtcttatttattctttcatattgtcatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||||  |  ||  |   | |  || ||  |   |||| |     | ||  |  |  ||  |   | | |         | || |  ||||||||| |||||||| |||||||| || |||||||||||||| |||||||| || || ||||| ||||| || |||
gtatgatacttgatataatggtattttgtttttgtggaaccacatgttgctcttagttctaatctatgaa-acatcacttttctcacagGGATATCAAAGGGGCCAACATACTTGTAGATCCTAATGGTGACATCAAACTTGCTGATTTTGGGATGGCCAAGCAT

upper sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g35700.1 (Oryza sativa), 3'ss of exon 5
gtatttt-gattattcctacgcaatctttaacgtggcatt--tagtcttatttattctttcatattgtcatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||| |   |||||| |  |     | ||| || |  | ||  ||||   |   || | || |     ||||| ||  ||||| || |||| ||||||||||| || |||||||| || |  |||||||||||| ||||||| || |||||||| |||||||| |||
gtagtacagattatccaca---gttgttttacattcctttggtagtaaaagaaataccttaaccacttcatcctg--tttctcttcgcagAGATATTAAAGGTGCTAACATACTTGTCGGCCCTAATGGTGAAGTCAAACTTGCTGACTTTGGCATGGCTAAGCAT

upper sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g35010.1 (Oryza sativa), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacgtg-gcatttagtcttatttattctt-tcatattgtcatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||| | | | |  |||||| |  |   | |  |      |  |   |   ||   |  |||  |||| |   |  |||| | | | ||| || |||||||| || |||||||| || |  |||||||||||| ||||||| || |||||||| ||||||||||||
gtaatgtaaattatcctacactgttagtgattttcatggtaggcactgaatacaatgatcactttgtaaattttatttt-tgtggacagAGACATTAAAGGAGCAAACATACTTGTGGGCCCTAATGGTGAAGTCAAACTTGCGGACTTTGGCATGGCTAAACAT

upper sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G140726_T01 (Zea mays), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacgtggcatttagtcttatttattctttcatattgtcatcgtg----gttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||  |||  || |    |       | | |      |  ||   | || ||       ||    | ||| ||      ||| ||||||||| ||||| ||||| || |||||||| || | ||||||||||||| |||| ||||| |||||||| |||||||| |||
gttgttttgttgtctaaaactgtcttctcattccataggtatagtcatatagcacagaatgcaataatcatgtcatacttttttttggcagAGATATCAAAGGAGCAAACATACTCGTGGGTCCTAATGGTGAAGTCAAGCTGGCTGACTTTGGCATGGCTAAGCAT

upper sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G53570.3 (Arabidopsis thaliana), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacgtggcatttagtcttatttattctttcatattgtc---atcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
|||||   |  ||  |  |  ||   || |  ||| ||| | | || | | |||||  | |||      |  ||  |||| || |  |||||| || ||||| || || ||| |||| ||||| ||||||||||||||  ||||||||||||| ||||| ||||||
gtattcaaa--atgacatcttaaaggttga-atggaattcaat-ttgtctcttcttggacatttaataaagagttattttgttctaacagGGACATCAAAGGAGCAAATATATTAGTGGATCCGAATGGTGAAATCAAGTTGGCAGACTTTGGGATGGCCAAACAT

upper sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacgtggcatttagtcttatttattctttcatattgtcatcgtggttttcttt--tggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||| |  | || |   || |    |||  | | |     |  |     |||||  |    | |   ||     | || |||  |||||||||||| |||||||| |||||| |||| |  |||||||| || |||||  |||| || ||||| ||||| ||||||
gtactg-ggttgtggttatgattacttgtatgagattgctgattcctcttatttctggcaactcagataaatatattttttcatggcagGGATATCAAAGGGGCAAACATATTAGTGGGACCTAATGGGGAGATCAAGTTGGCTGATTTTGGCATGGCAAAACAT

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|15287318|gb|BI471209.1|BI471209
EST:     CAGATTGTCTCTGGACTTGCTTATCTGCATGGAAGAAATACAGTACACAG                         GGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
genomic: CAGATTGTCTCTGGACTTGCCTATCTGCATGGAAGAAATACAGTACACAGgtattttgat ... cttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
EST: gi|254325845|gb|GR838726.1|GR838726
EST:     CAGATTGTCTCTGGACTTGCCTATCTGCATGGAAGAA-TACAGTACACAG                         GGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
genomic: CAGATTGTCTCTGGACTTGCCTATCTGCATGGAAGAAATACAGTACACAGgtattttgat ... cttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
EST: gi|22521983|gb|BU080794.1|BU080794
EST:     CAGATTGTCTCTGGACTTGCCTATCTGCATGGAAGAAATACAGTACACAG                         GGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
genomic: CAGATTGTCTCTGGACTTGCCTATCTGCATGGAAGAAATACAGTACACAGgtattttgat ... cttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
EST: gi|6567062|gb|AW234689.1|AW234689
EST:     CAGATTGTCTCTGGACTTGCCTATCTGCATGGAAGAAATACAGTACACAG                         GGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
genomic: CAGATTGTCTCTGGACTTGCCTATCTGCATGGAAGAAATACAGTACACAGgtattttgat ... cttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcatttagtcttatttattctttcatattgtcatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
                                         ttttctttt  CT-rich tract
          tcttatttattctttc  TA-rich tract