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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttctttgaatttcttttacatgctacttttactgtattggaatcaatttattccaccttttaacttcctcttttcctctctttttgtttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGCTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACC

Basic information

species Glycine max
transcript GLYMA10G42940.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G42940.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 5
---tttttctttgaatttcttttacatgctacttttactgtattggaatcaatttattccaccttttaacttcctcttttcctctctttttgtttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGCTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACC
    |  ||| | | ||| | |    |    ||||| ||   ||| |   |    | |  |         || ||   |   | |  |  |  || || | ||||  | ||||||||||||||||| || |||||||| ||||| |||||||| ||||||||||| ||||||||||| ||||| ||||| || ||||| ||| 
tgaataatctataagtttttgtagtttatatcttttccttgtttgcatgtagc--actgaagtagcggcattgcttaatatgtgtggtaattctt-tctatagGTCCTGAAAACTCCTGTCTCACTTGATATGCTTGGGCGCATTTTTAATGGATCTGGAAAACCCATTGATAATGGCCCACCTATTTTGCCAGAGGCCTACT

upper sequence: GLYMA10G42940.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 5
tttttctttgaattt---cttttacatgctacttttactgtattggaatcaatttattccaccttttaacttcctcttttcctctctttttgtttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGCTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACC
| |  |  ||  | |   |||||   || |   || | |    ||   | | | |      ||| |    ||    | | |    | || ||||| |  |||||| || ||||||||||||||||| || |||||||| ||||| |||||||| ||||||||||| ||||| ||||| || || || |||||||| || ||| 
tctggcagtgggtctgccctttttagtgttttcttcattaccctgt--ttattgtgaaaatcctgtcttgtttgattatgcagtacattgtgtttctt-acagGTTTTGAAAACTCCTGTCTCACTCGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTATTGACAATGGCCCCCCGATATTACCTGAAGCCTACT

upper sequence: GLYMA10G42940.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 5
tttttctttgaatttcttttaca-tgctacttttactgtattggaatcaatttattc--caccttttaacttcctc--ttttcctctctttttgtttgtcc-acagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGCTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACC
         |  |   ||| ||| || || | ||  | | | | |  |  ||||||    |  |   | |||  |   || | |  || || ||||| |   |||||| || ||||||||||||||||| || |||||||| ||||| |||||||| ||||||||||| ||||| ||||| || || || || || || || ||| 
-----accaggttaaatttaacaatgatattgtt-ttctttagtaccctgtttattgagaaattcccatcttgtttgattatacagtcattgtgtttcttttacagGTTTTGAAAACTCCTGTCTCACTTGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTATTGACAATGGCCCCCCGATATTGCCCGAAGCCTACT

upper sequence: GLYMA10G42940.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 5
tttttctttgaatttcttttacatgctacttttactgta---ttggaatcaatttattccaccttttaacttcctcttttcctctctttttg--tttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGCTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACC
      |      ||  | |   |||||  | || | |    |||  ||||| || || |    | ||  |   || ||   || |||| |     | |  |||||| || ||||||||||||||| | || |||||||| || || |||||||| || || ||||| ||||||||||| || || || || || ||||||||| 
-----gtcaagcctttctgtgattgctatctctagtatcagtttgagatcaacttctttctttctgtagatatttcattgtgtccctttcttaccctttatacagGTTTTGAAAACTCCTGTCTCATTGGATATGCTTGGGCGTATCTTTAATGGTTCAGGGAAACCCATTGATAATGGGCCTCCTATATTGCCAGAGGCTTACT

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|19053577|gb|BM732244.1|BM732244
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|16346337|gb|BI971932.1|BI971932
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|120533316|gb|EH261449.1|EH261449
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|120533616|gb|EH261749.1|EH261749
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|213596831|gb|DB964094.1|DB964094
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|120533188|gb|EH261321.1|EH261321
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|120533627|gb|EH261760.1|EH261760
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|120533687|gb|EH261820.1|EH261820
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|213591852|gb|DB973417.1|DB973417
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|209727398|gb|BW669851.1|BW669851
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|208145241|gb|GD941760.1|GD941760
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCGATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|13478635|gb|BG508033.1|BG508033
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|120532915|gb|EH261048.1|EH261048
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|209697688|gb|BW655589.1|BW655589
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|120533425|gb|EH261558.1|EH261558
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
EST: gi|213595962|gb|DB955998.1|DB955998
EST:     GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAG                         GTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC
genomic: GTACATCTGGAATCGACAATAAATTTACGACTGTGCAATTTACTGGAGAGgtgaagactc ... ttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatttattccaccttttaacttcctcttttcctctctttttgtttgtccacagGTGTTAAAAACTCCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGCTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACC
               ttttaac  putative branch site (score: 2)
        ttccaccttttaactt  CT-rich tract
               ttttaactt  TA-rich tract