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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttatcatggatattttcatgatcaacttagtagcattctccctttgatttggagtttattttcttcagctactactgtgcttaaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA

Basic information

species Glycine max
transcript GLYMA10G36210.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 3'ss of exon 3
---------------------------gtaggttatcatggatattttcatgatcaacttagtagcattctccctttgatttggagtttattttcttcagctactactgtgc-ttaaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA
                            |    |||||||   ||| | |  || | | ||  ||   | |  |   | |   |   |       |||   || |  |||   ||  |       |||  ||||   ||| | |||| ||||| ||  |||| |||||    |||||||| || |||||||||||||| ||  ||||||||||||||| | |||| ||||| ||||| ||
gtaaataatggttttgtgctccccagtcttttctatcatgcccattataaatattatcctaccagatatgtatccaggttactgtactataacctttcttttaatgttgtaagttgtatcaagtgctaa-ttgtttggttctaacagGGAAGAGTTAGAAATCTTTTCAAAAGAAGTTGTTCGATTTGGAAATCGTTGCAAGAATCCTCAATGGCACAGCTTGGACCGCTACTTTGAAAA

upper sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G046846_T01 (Zea mays), 3'ss of exon 3
------------------------------------gtaggttatcatggatattttcatgatcaacttag-tagcattctccctttgatttggagtttattttcttcagctactact---gtgcttaaagttttcactatcttgtact-gttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA
                                         || ||      ||||   |  |  | |||  ||||||   ||   | || | ||    || | ||||| ||  |  |    |||||  ||||  |   |  || || | | |   |||| ||||| |||||| | || |||   |||||||| || |||||||||||||| || |||||||| ||||||||| |||| ||||| ||||| ||
gttagtgaataatctctgattctttttataaactataacaattgtctgaaccatttgtttattttatttatctagcatcaacctggttatatagaagaaatgtacttcaacttgtttttatatgcttgtagttacctgaagtttttatttggtccaacagGGAAGAGTTGAAAGTGTTCTCTACAGAAGTTGTTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCACAACTTGGACCGCTACTTTGATAA

upper sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 2
-----------------------------------gtaggttatcatg-gatattttcatgatcaactta-gtagcattctccc---tttgatttggagtttattttct-tcagctactactgtgcttaaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA
                                   ||| ||| | |    || | | |||| |     |  ||   |  ||      | ||  ||| |   |    | |  |   || |  | |    ||| |  |  ||   ||      ||   |||| ||||| ||  || ||||  |  | || ||||| || |||||||| ||||| || |||||||||||||| ||| |||| ||||| ||||| ||
gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaaactgcagtgtgccttttatttttatctcgaaattaataccttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA

upper sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G34320.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaggttatcatggatattttcatgatcaacttagtagcattctccctttg-atttggagtttattttcttcagctactactgtgcttaaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA
                                ||  |    | |    |||  ||  | ||| ||  | ||     | |  |    |  |  |          |   | ||| |  |||| ||||| ||||  || |||||||| || || ||||||||||| |||||||| || ||||||||||  |||||||||||||| |  ||||| | 
-------------------------------gtaacaattgtttgtgattgtgttctgtgttgatgctgttttctaatttgtagtttggagataagtgacggttgaaattgtat--acagGGAAGAGTTGAGGATTTTTTCTGGAGAGGTGGTGCGTTTTGGGAATCGTTGCAAGGATCCTCAATACCACAACCTGGATCGTTTCTTTGACAG

upper sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
-------gtaggttatcatggatattttcatgat-caacttagtagcattctccctttgatttggagtttattttcttcagctactactgtgct--taaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA
        |     |  ||   |  ||| || ||   | ||  ||     |||  |||    |||   ||||||| | ||  |  || | |     | || |  |||||   || | |  || || ||| |||||| ||||||| |||||||| ||||| || |||||||| ||||| |||||||||||||| ||||||||| |||| || || ||||||||
gtgaatactgaaacagaataattgctttgattatatcatttgttaatgggctcattttttcctgg---ttatttt-tccaattgttattctaaaagtgaaatggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA

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|193708653|gb|FK644989.1|FK644989
EST:     ATATCCAGAGATATGGATGAACTCCTAAGAATTGCTGCAGCTGACAAGAG                         AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTG
genomic: ATATCCAGAGATATGGATGAACTCCTAAGAATTGCTGCAGCAGACAAGAGgtaggttatc ... gttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTG
EST: gi|208332689|gb|GE126938.1|GE126938
EST:     ATATCCAGAGATATGGATGAACTCCTAAGAATTGCTGCAGCTGACAAGAG                         AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTG
genomic: ATATCCAGAGATATGGATGAACTCCTAAGAATTGCTGCAGCAGACAAGAGgtaggttatc ... gttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttcagctactactgtgcttaaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA
                                           ctgtttt  CT-rich tract
                     ttaaagtttt  TA-rich tract