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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgaaatattattgaatcttatcagctatcatgcataatgcactctcaattctgactgattgtttttcttgaacttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGATATATATTGACAGGCAGTTGTATAACAGGCAG

Basic information

species Glycine max
transcript GLYMA09G38110.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 10
--gtgatgaaatattattga--atcttatcagctatcatgca--taatgcactctcaat-------tctgactgattgtttttcttgaacttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGATATATATTGACAGGCAGTTGTATAACAGGCAG
  | | || |   |||      || |||| | |||   ||    |  |  | ||| ||        | ||  | |   | |    |    | ||  |||||||||||||||||||||||||||||||| || || ||||| || ||||||||||| |||||||||||| || ||||||| |||
ttgcgttggatctttaccatttatgttattacctaatgtgtgctttgtttagtcttaaacaataaatatgtttaacattgtgctgtttcatcctaaacagATATTACACATCCAACTCCTGATCTTACGGGGTACATTACCGAAGGACAGATATACATTGACAGGCAGCTGCATAACAGACAG

upper sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G094497_T03 (Zea mays), 3'ss of exon 1
------------gtgatgaaatattattgaatcttatcagct-atcatgcataatgcactctcaattctgactgattgtttttcttgaacttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGATATATATTGACAGGCAGTTGTATAACAGGCAG
             | ||||  ||||    |    | |||  |  |   ||||     |||   |   |      | | || |  |  | |      |||||||| ||||| ||||||||||| ||||| ||||| |||||||||||||||||||| ||||| |||||| |  ||||||| |||
tagcatgttggtctcatgatttatttaccatctatttcattttgttgggcatttaatactagtataccatgtctaatattgtaatctacccctaaaacagATATCACACACCCAACTCCTGACCTTACTGGATACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG

upper sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G181151_T01 (Zea mays), 3'ss of exon 10
gtgatgaaatat-----tattgaatcttatcagctatcatgcataatgcactctcaattctgac------tgattgtttttct--tgaacttctgta-cagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGATATATATTGACAGGCAGTTGTATAACAGGCAG
 | || ||| |      |  ||  | ||    |  |  |    |  ||  |  | ||  |          ||  |  | || |  |  ||| ||  | ||||||| ||||| |||||||| || ||||| ||||| |||||||||||||||||||| ||||| |||||| |  ||||||| |||
-taataaaacacagctctcctgtgttttcgaggagaaaaaaattgttggccatttaacgcaagtataccatggctaatattgtaatctactcctaaaacagATATCACACACCCAACTCCGGACCTTACTGGATACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG

upper sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 9
------------------------------------------------------------------gtgatgaaatattattgaatcttatcagcta-------tcatgcataatgcactctcaatt--ctg-actga--ttgtttttcttgaacttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGATATATATTGACAGGCAGTTGTATAACAGGCAG
                                                                   || |  | |||| |||    || |   ||        || |  |   || |||     ||  ||| ||| |  ||    ||  ||   ||  || |||||||||| || |||| |||||||||||||||||||||||| || || || || ||| ||||  |||||||  | ||||| |||
gtcagttgcatccttcctttgtcatcaagtttcagtatttgctttctttgaaatgggcattttactttgttatattatttttgctctttcttgactgcgtgcagtcttcgactgtggacttctccttgtctgtactaagcttcacctttgtggcatttcgtgcagATATTACCCACCCAATTCCTGATCTTACAGGATATATTACGGAAGGTCAAATTTATGTTGATCGGCAGTTACAAAACAGACAG

upper sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 3'ss of exon 9
-------------------------------------------------------------------------------------------gtgatgaaatattattgaatcttatcagctatcatgcataatgcactctcaat-tctgactgattgtttttcttgaacttc------tgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGATATATATTGACAGGCAGTTGTATAACAGGCAG
                                                                                               |||  |  ||  |    | ||    |    || ||  ||   | |   | | |   | | ||  |||| || |  ||      | | |||||||||| ||||| | |||||||||||||||||| ||||| || || || || ||  | ||  |||||||  | || || |||
gttagttgcatcctccatttatcactaatttcttatattagtggacttagtgatggagaactacccttatttgatactttgtttctgtccttacttgaccttctacaggccttaatttatttctttgaattgtgatttttttttctttaggttactgagtttcgtgtatgtcgtactttttgcagATATTACCCATCCTATTCCTGATCTTACAGGATACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAG

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|27426282|gb|CA937802.1|CA937802
EST:     GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATG                         ATATTACGCATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
genomic: GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaat ... ttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
EST: gi|27426098|gb|CA937618.1|CA937618
EST:     GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATG                         ATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
genomic: GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaat ... ttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
EST: gi|16279376|gb|BI943404.1|BI943404
EST:     GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATG                         ATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
genomic: GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaat ... ttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
EST: gi|16277795|gb|BI942566.1|BI942566
EST:     GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATG                         ATATTACGCATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
genomic: GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaat ... ttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
EST: gi|16283538|gb|BI945603.1|BI945603
EST:     GCGAACAGGCTCTATTACACAAATTCCAATTCTGACCATGCCTAATGATG                         ATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
genomic: GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaat ... ttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
EST: gi|16277730|gb|BI942533.1|BI942533
EST:     GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATG                         ATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
genomic: GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaat ... ttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
EST: gi|16284553|gb|BI946150.1|BI946150
EST:     GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATG                         ATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA
genomic: GCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaat ... ttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgcataatgcactctcaattctgactgattgtttttcttgaacttctgtacagATATTACACATCCAACTCCTGATCTTACAGGATATATTACTGAGGGACAGATATATATTGACAGGCAGTTGTATAACAGGCAG
                                            cttctgt  CT-rich tract
                             attgttttt  TA-rich tract