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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgatggatatgctgacccttatcgtgtgcctcataatatttcaatttagcttacttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG

Basic information

species Glycine max
transcript GLYMA13G17370.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17370.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g01930.1 (Oryza sativa), 3'ss of exon 5
tatgatggatatgctgaccct-tatcgtgtgcctcataatatttcaatttagcttacttgtccttttgcc---taagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
  | || |||    |||   | | |    ||  ||||  ||||     ||  || | || |  || |      |||  || | |  || ||   || | |||||||||||||||||| || |||||||||||||| || ||||| ||||| |||
--ttattgattacttgatgttatttgacatgtttcatg-tattgactattgactgatttttaattgtagttagtaacttggtctagtattttgggt-actgcagGAGCATGTGAAGGTTCACTTGCGTGTTCAACCTGTCATGTCATAGTTATG

upper sequence: GLYMA13G17370.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 5
tatgatggatatgctgacccttatcgt-gtgcctcataatatttcaatttagcttacttgtc-cttttgcctaagctga--tttcttact--tgatgttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
    ||   ||   |     || |  |  | |||  | || || ||  | | || | ||    || | |   | | | |  || | | ||  ||  | || ||||||||||||||| ||||| ||||||||||| ||||| ||||| ||||| |||
----atcagtacattaggtattgtaatcattcctttttatgttcca--tcaactgattttcagctgtagttcatgataaccttccctgctattgtggctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG

upper sequence: GLYMA13G17370.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G856338_T01 (Zea mays), 3'ss of exon 1
tatgatggatatgctgacccttatcgt-gtgcctcataatatttcaatt-tagcttacttgtccttttgcctaagctgatttcttact-tgatgt-tattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
    ||  |||   |     |  | ||  | |||  | || ||  | |    | ||    |   |  | | | |    ||| | | || |  ||| || ||||||||||||||| || || ||||||||||| ||||| ||||| ||||| |||
----atcaatacattaggtatcgtagtcattcctttttatgttctattcactgattttcagctgtaattcatgataacattccctgctattgtgtctactgcagGAGCATGTGAGGGTTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG

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|7284255|gb|AW596850.1|AW596850
EST:     TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAG                         GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
genomic: TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAGgcaagagctt ... gttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
EST: gi|254329164|gb|GR833536.1|GR833536
EST:     TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAG                         GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
genomic: TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAGgcaagagctt ... gttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
EST: gi|22931821|gb|BU548960.1|BU548960
EST:     TGGAANGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAG                         GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGNNNTAGTCATG
genomic: TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAGgcaagagctt ... gttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
EST: gi|14125826|gb|BG790264.1|BG790264
EST:     TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAG                         GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
genomic: TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAGgcaagagctt ... gttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
EST: gi|254329165|gb|GR833537.1|GR833537
EST:     TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAG                         GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
genomic: TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAGgcaagagctt ... gttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
EST: gi|298165268|gb|HO011317.1|HO011317
EST:     TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAG                         GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
genomic: TGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAACTAGAAGgcaagagctt ... gttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttagcttacttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG
                               atttctta  TA-rich tract