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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatggaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatatttaaatttagcttcacctagattagcc...

Basic information

species Glycine max
transcript GLYMA16G23590.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g13970.1 (Oryza sativa), 5'ss of exon 9
CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatggaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatat--ttaaatttagcttcacctagattagcc-
|| ||||| |||||||| ||||| || ||||| |||||||||||||| || |||||    |||   |||||| | |||  | |||        ||  |||||||| ||   ||   |||||||  | | |     |  ||    ||| | ||    |   |     || |  
CTCCCTGGTGTTGACCCCAATGACCCCTCTGTGAAAGATTTGCTGGCATCATTGCATGGGCAGGGCGAGgtatgcttttctctatccttttagattgttgagtttcaatcaaa---cttagaaggtctgagtacagttatgacattagactttctattgtccctcgtacctt

upper sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G007884_T01 (Zea mays), 5'ss of exon 4
-------------------------------CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatg----gaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatatttaaatttagcttcacctagattagcc
                               |||||||| ||||| || |||||||||||||| |||||||||||||| || ||||| |  |||   |||||| ||| | ||||  |        |   ||  ||  ||   |   |||    |  | | || |     |   |||      || |||||||||| || ||   
TTTATTAGCCCTTTTATGTGTAAAATAACAACTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGAGAGAGgtatgttcttttttgggttccagtgaaggtctctgtattgtgatgcaatgaaattca-tgttgcctctagactatagcattgttcagcttcaccttgacta---

upper sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G147671_T02 (Zea mays), 5'ss of exon 9
CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatg---gaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatatttaaatttagcttcacctagattagcc
|||||||| ||||| || |||||||||||||| |||||||||||||| || ||||| |  |||   |||||| ||| | ||||  |    |    |    |     |||  | | |         || || |     |   |||      || |||||||||| || ||   
CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttcttttttgggttccagtgaaggtctcagtattgtgatgcaatgaaattcatgttgcctctagactatagcattgttcagcttcaccttgacta---

upper sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G165926_T02 (Zea mays), 5'ss of exon 9
CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatggaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatatttaaatt-tagcttcacctagattagcc----
|||||||| ||||| || |||||||||||||| |||||||||||||| || ||||| |  |||   |||||| ||| | |||   | || |      |  || |     || || | | |    ||   |     |     | || ||  |||| |     || ||  ||    
CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCGTTGCACAGCCAGGGAGAGgtatgttctttttcgggtaacac-----tgaaggtccgccagtatttgtgatgcaatgaaattcatgttgcctctagatgatagcattgatcagcttcaccttga

upper sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G180820_T01 (Zea mays), 5'ss of exon 2
-------------------------------CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatg----gaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatatttaaatttagcttcacctagattagcc
                               |||||||| ||||| || |||||||||||||| |||||||||||||| || ||||| |  |||   |||||| ||| | ||||  |        |   ||  ||  ||   |   |||    |  | | || |     |   |||      || |||||||||| || ||   
TTTATTAGCCCTTTTATGTGTAAAATAACAACTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttcttttttgggttccagtgaaggtctctgtattgtgatgcaatgaaattca-tgttgcctctagactatagcattgttcagcttcaccttgacta---

upper sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G078663_T03 (Zea mays), 5'ss of exon 3
CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatg----gaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatatttaaatttagcttcacctagattagcc
|||||||| ||||| || |||||||||||| | |||||||||||||| || ||||| |  |||   |||||| ||| | ||||  |        |   ||  ||  ||   |   |||    |  | | || |     |   |||      || |||||||||| || ||   
CTTCCTGGTGTTGATCCCAATGATCCATCTATTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttcttttttgggttccagtgaaggtctctgtattgtgatgcaatgaaattca-tgttgcctctagactatagcattgttcagcttcaccttgacta---

upper sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 5'ss of exon 9
CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatggaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatat-ttaaatttagcttcacctagattagcc------------
||||| || |||||||| |||||||| || |||||||||||||| || ||| |||||||| |||| ||||| |||||   || |   | |||     |||| |   | | | || |  | |  |     |   |    |||| | |     || |     | |  ||               
CTTCCAGGAGTTGACCCCAATGATCCTTCAGTCAAAGATTTGCTAGCATCCATGCAAAATGAGTCAGAGgtgggtttg--ttaacttacaatttatgttgattacaagaggcattttcttgcctccactaattgcccaatatgtcaggcagagatgttgattgtataattgtttcttctcag

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|192323832|gb|FK018598.1|FK018598
EST:     ATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAG                         CCTCAGCAGAAGAATGAAGACAAGCCACCAAATGAAGAGGAGAAAAAATAA
genomic: ATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttc ... tgtcaatcagCCTCAGCAGAAGAATGAAGACAAGCCACCAAATGAAGAGGAGAAAAAATAA
EST: gi|22933789|gb|BU550928.1|BU550928
EST:     ATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAG                         CCTCAGCAGAAGAATGAAGACAAGCCACCAAATGAAGAGGAGAAAAAATAA
genomic: ATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttc ... tgtcaatcagCCTCAGCAGAAGAATGAAGACAAGCCACCAAATGAAGAGGAGAAAAAATAA
EST: gi|21675640|gb|BQ627991.1|BQ627991
EST:     ATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAG                         CCTCAGCAGAAGAATGAAGACAAGCCACCAAATGAAGAGGAGAAAAAATAA
genomic: ATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttc ... tgtcaatcagCCTCAGCAGAAGAATGAAGACAAGCCACCAAATGAAGAGGAGAAAAAATAA