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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ttagtagtttcaattcaaggatgatgcatttcattcatattcacactcctttttgacctttctcatataagcatgtgtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG

Basic information

species Glycine max
transcript GLYMA18G53810.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G017835_T01 (Zea mays), 3'ss of exon 6
-------------------------------------------------------ttagtagtttcaattcaaggatgatgcatttcattcatattcacactcctttttgacctttctcatataagcatgtgtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG
                                                       ||| |  |   |  | |  | || |  |   ||||     |     ||   ||      ||||  | | |   |    ||  ||||||||||||||||||| ||  | | |||||||||||||   ||||||||||| ||||||   ||||| 
gtaaacaagactgttccaattaacttgcatttttttgtgaaattgtccccctttcttatttctgctagattactggtggtctagagcattaggtcttttgatcagcttaacagcttctt-tgttaattttcacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG-

upper sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
ttagtagtttcaattcaaggatgatgcatttcattcatattcacactcctttttgacctttctcatataagcatgtgtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG
   || | ||  ||||        |   | | |||| |  |     | ||| || ||||||||||| |    |     |||||||| ||||||||||||||       || || || |||||||||||||||||||| |||||||||||||| 
---gttgatttcattc--------tctttgttattcttgctagg--ttcttctttacctttctcatttttcaaccaacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG-

upper sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
----------------------ttagtagtttcaattcaaggatgatgcatttca-------ttcatattcacactcctttttgacctttctcat-ataagcatgtgttttt-cagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG
                      ||   |||||  || |    ||| ||| | | |       || ||  |   |  | ||||  |  ||| | || || |     |  | || |||||||||||||||| ||||   | | |||||||||||||||||||||||| || |||||||||||||| 
gtaagttaattttttagagccttttcaagttt--atccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG-

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|7588450|gb|AW704307.1|AW704307
EST:     CCTTCTACACCACAAGAAAAGAAATTATTTCTTGTAGACCTTGGATTAGC                         AACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACG
genomic: CCTTCTACACCACAAGAAAAGAAATTATTTCTTGTAGACCTTGGATTAGGttagtagttt ... gtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACG
EST: gi|193538003|gb|FK498020.1|FK498020
EST:     CCTTCTACACCACAAGAAAGGAAATTATTTCTTGTAGACCTTGGATTAGC                         AACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACG
genomic: CCTTCTACACCACAAGAAAAGAAATTATTTCTTGTAGACCTTGGATTAGGttagtagttt ... gtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcatattcacactcctttttgacctttctcatataagcatgtgtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG
                   ttttgac  putative branch site (score: 3)
                                            tgtttttc  putative PPT
                               tcatataa  TA-rich tract