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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttccaagtttaatgcactaacaattctatatagcaccgcaaggtgaatatatgaagtatgaaaatgcatatattaatatgattattaatttgtgttggattaataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCATGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG

Basic information

species Glycine max
transcript GLYMA15G36200.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G36200.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g33900.1 (Oryza sativa), 3'ss of exon 1
gttagtttccaagtttaatgcactaacaattctatatagcaccgcaaggtgaatatatgaagtatgaaaatg-catatattaatatgattattaatttgtgttggattaataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCATGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
    ||    | |  ||    | |   |  | |||   || | |     | |  | |  |  |     | |  ||   | | |   |   ||   | ||| |    |  |      ||||| ||||| ||||| ||||||||||| || ||| | ||| |||| || || |||||||| || || |||||||||||||| || |||||||| || || 
----gtacgtacgcatacaaaaattggagatatat---gctctgattttttagcacagtatttgctctattctcacgcactgaccggccaatgtgtatgtat---gtccacgtg-tagGCCGGTGATCGATCAGAATTTCTACTACGCCGGGCTCAAGTTCACCTCGCCGACCTTCTCCTGCGCCATGAGCAACATGCTCCCGGCCATGACCTTCGTC

upper sequence: GLYMA15G36200.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G136567_T02 (Zea mays), 3'ss of exon 1
gttagtttccaagtttaatgcactaacaattcta--tatagcaccgcaaggtgaatatatgaagtatgaaaatgcatatattaatatgattattaatttgtg--ttggattaataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCATGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
||  ||   || |          |     | | |  ||| || | |  || |   |   ||    |        |  |   | || ||  |     | || |  | |  |       ||||||| ||||| || || || |||||||| || ||| | ||| |||| || || |||||||| || || |||||||||||||| || |||||||| || || 
gtgcgtgcacagggggggcttggttctgttccgagttattgcgctgttagtttcttgcttggcaaaactctgctctgactctgat-tgcatgcggctctgcgaatcgtttcgtgcgcacagGCCGGTGATCGACCAGAACTTCTACTACGCGGGGCTCAAGTTCACCTCGCCGACCTTCTCCTGCGCCATGAGCAACATGCTCCCCGCCATGACCTTCGTC

upper sequence: GLYMA15G36200.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G07050.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagtttccaagtttaatgcactaacaattctatatagcaccgcaaggtgaatatatgaagtatgaaaatgcatatattaatatgattattaatttgtgttggattaataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCATGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
    |||   |   ||||| ||||  |   ||||| |  |  |      |    | | | |   |  |||   |    |||| ||  || ||  ||| | |   |  ||    ||||||| ||||| |||||||| ||||||||    ||| ||||    || |||||||| |||||||| || ||||| ||||||||||| |||||||| ||| | 
----gttgtta--cttaat-cactgtc---tctatttgactaccttgtctttgcaaaagcaaattagaaagaga---gttaacat--ttttttctttctat--aaacaaatttacagGCCAGTGATCGATCAAAACTTCTACTACATGGGGCTGAAATATACGTCCCCAACGTTCTCATGCGCCATGAGTAACATGCTTCCGGCCATGACCTTTATC

upper sequence: GLYMA15G36200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0084g00090.t01 (Vitis vinifera), 3'ss of exon 2
gttagtttccaagtttaatgcac--taacaattctatatagcaccgcaag---gtgaatatatgaagtatgaaaatgcatatattaatatgattattaatttgtgttggattaataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCATGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
|||||| |||   |||  |   |  |  |  ||  ||  |  |  ||||    |   | | || ||  | |    ||  || ||    |   | || ||     ||| | ||      | ||||||||||| || || || || || |||||||| |||||||| || ||||| ||||||||||| ||||||||||| |||||||| |||||||| || || 
gttagtctccttttttttttttccttttctttttcatgcattattgcaaatatgcagacacatcaatcaagctcttgtgtagatattcaatctgatcaaagcaagtttgtttggattgatagGCCTGTGATCGACCAGAACTTTTATTATGCTGGTTTGAAGCTGACTTCCCCGACCTTCTCATGCGCAATGAGCAATATGCTTCCGGCCATGACATTCGTC

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|120532886|gb|EH261019.1|EH261019
EST:     AAGATAACATTCCCAGTTTTCATGCAAATTTTTATTCTTGCTCTTCTTGG                         GCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC
genomic: AAGATAACATTCCCAGTTTTCATGCAAATTTTTATTCTTGCTCTTCTTGGgttagtttcc ... aataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC
EST: gi|120532701|gb|EH260834.1|EH260834
EST:     AAGATAACATTCCCAGTTTTCATGCAAATTTTTATTCTTGCTCTTCTTGG                         GCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC
genomic: AAGATAACATTCCCAGTTTTCATGCAAATTTTTATTCTTGCTCTTCTTGGgttagtttcc ... aataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC
EST: gi|298194240|gb|HO040888.1|HO040888
EST:     AAGATAACATTCCCAGTTTTCATGCAAATTTTTATTCTTGCTCTTCTTGG                         GCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC
genomic: AAGATAACATTCCCAGTTTTCATGCAAATTTTTATTCTTGCTCTTCTTGGgttagtttcc ... aataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgaaaatgcatatattaatatgattattaatttgtgttggattaataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCATGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
           atatattaatatgatt  TA-rich tract