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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccaccttatcatgcatcgttaattgaatatgttttattttttattgtggtttcaaaacaagatgagctaattaaaatttttaaatgatgctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGAGTTCTTCATCGAGACTTAAAACCACAGAATTTGTTGATAGATCGCAGCA

Basic information

species Glycine max
transcript GLYMA05G25320.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g02680.1 (Oryza sativa), 3'ss of exon 2
--------tccaccttatcat-gcatcgttaattga--atatgttttattt-tttattgtggtttcaaaacaagatgagctaattaaaatttttaaatgatgctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGAGTTCTTCATCGAGACTTAAAACCACAGAATTTGTTGATAGATCGCAGCA
        || || ||    | ||||   |  ||||  | |   | ||||  |||||||||||| ||       ||| |    ||    || ||        |||||| |||   |  || || || || ||| | ||| |||| ||||||||||| |||||||||||||||||||| || ||||| |||||||| |||||||||||  | |
aaaatgtgtctacattcctgttgcattcatgcttgaccagaaagtgtattagtttattgtggttgcatcttggaatgtgactgtt----ttctt--------ctttctccagTCATATCTCTATCAGATACTCCGCGGCGTTGCTTACTGTCATTCTCATAGAGTTCTTCATCGAGATTTGAAACCTCAGAATTTATTGATAGATCGGCGTA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g01850.1 (Oryza sativa), 3'ss of exon 4
--------tccaccttatcat-gcatcgttaattga--atatgttttattt-tttattgtggtttcaaaacaagatgagctaattaaaatttttaaatgatgctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGAGTTCTTCATCGAGACTTAAAACCACAGAATTTGTTGATAGATCGCAGCA
        || |  ||    | ||||   |  ||||  | |   | ||||  |||||||||||| ||       ||| |    ||    || ||        |||||  |||   |  || || || || ||| | ||| |||| ||||||||||| |||||||||||||||||||| || ||||| |||||||| |||||||||||  | |
aatatgtgtctaaattcctgttgcattcatgcttgaccagaaagtgtattagtttattgtggttgcatcttggaatgtgactgtt----ttctt--------ctttcgccagTCATATCTCTATCAGATACTCCGCGGCGTTGCTTACTGTCATTCTCATAGAGTTCTTCATCGAGATTTGAAACCTCAGAATTTATTGATAGATCGGCGTA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 3
tccaccttatcatgcatcgttaattgaatatgttttattttttattgtggtttcaaaacaagatgagctaattaaaatttttaaatgatgct----------ttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGAGTTCTTCATCGAGACTTAAAACCACAGAATTTGTTGATAGATCGCAGCA
         | ||    | ||  |    |   || ||| | |||    |      ||   || ||           ||||| |||||   ||          |||| |||   | ||| ||||| || ||| ||||| |||| ||||| ||||| |||||||||||||| ||||| || ||||| ||||| ||||||||||||||  | |
---------ttatttgcctttcctcatttccattgtatctattaaccagaaaatgaa-tgaggtgcctgtggatgcattttgaaatgtgactgttttctttgttctccagTCATACCTCTACCAGATACTCCGTGGCGTTGCGTACTGCCATTCTCATAGAGTTCTTCACCGAGATTTGAAACCTCAGAACTTGTTGATAGATCGGCGTA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G008327_T01 (Zea mays), 3'ss of exon 3
--------tccaccttatcatgcatcgttaattgaatatgttttattttttattgtggtttcaaaacaagatgagctaattaaaatttttaaatgatgctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGAGTTCTTCATCGAGACTTAAAACCACAGAATTTGTTGATAGATCGCAGCA
        ||      || ||   || | |  |||| |||  | |  |     ||   | |     ||   |||  |  | |  |||||       | |||||| |||   | ||| ||||| || |||   ||  |||| ||||| ||||| ||||||||||||||||||||||| ||||| || || || |||||||||||  |||
ccctttcctcatttccattatatctcataacctgaaaatgaatgaggtgcaggtgct-tgtgggtgcattctgaaatg-taactattttc------ttctttctccagTCATACCTCTACCAGATACTCCACGGTGTTGCGTACTGCCATTCTCATAGAGTTCTTCATCGAGACTTGAAACCTCAAAACTTATTGATAGATCGGCGCA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0045g00310.t01 (Vitis vinifera), 3'ss of exon 4
tccaccttatcatgcatcgttaattgaatatgt-tttattttttattgtggtttcaaaacaagatgagctaattaaaatttttaaa-tgatgctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGAGTTCTTCATCGAGACTTAAAACCACAGAATTTGTTGATAGATCGCAGCA
|      | || |  ||  | ||||   |   | ||||||| |     |    |   |  |  |||     ||     || | | | |   |   | |||||||||||||| | || |||||| |||| ||||| || |||||||| ||||| |||||||||||||| || || || ||||| ||  | ||||||||  | |
tttttgatgtc-tatattttaaattattttcatatttatttctgggcatatgcttggag-ataatggtgcgatggggcttctgacacttgagtcctttgcagATGTTCCTGCATCAGATTCTCCGTGGTATTGCTTATTGTCATTCTCATAGGGTTCTTCATCGAGATTTGAAGCCCCAGAACTTACTCATAGATCGTCGTA

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|51335099|gb|CO978965.1|CO978965
EST:     AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAA                         ATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGA
genomic: AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAAgtgtgtgact ... ctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGA
EST: gi|193414159|gb|FK377859.1|FK377859
EST:     AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAA                         ATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCA
genomic: AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAAgtgtgtgact ... ctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCA
EST: gi|16996519|gb|BM085891.1|BM085891
EST:     AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAA                         ATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGA
genomic: AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAAgtgtgtgact ... ctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGA
EST: gi|254326865|gb|GR836474.1|GR836474
EST:     AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAA                         ATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGA
genomic: AGCACATGGATTCATCTCCAGAATTTGCAAAAGATCCACGACAAGTAAAAgtgtgtgact ... ctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtggtttcaaaacaagatgagctaattaaaatttttaaatgatgctttctgcagATGTTCCTGTACCAAATTCTCTGTGGCATTGCATACTGTCATTCACATAGAGTTCTTCATCGAGACTTAAAACCACAGAATTTGTTGATAGATCGCAGCA
                    agctaat  putative branch site (score: 3)
                                           tgctttct  putative PPT
                       taattaaaatttttaa  TA-rich tract