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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttcccaaactaatcacttcccaagcccacagctagagacctatattgactagtaatcttattgcaattatatcaatatagtatgccttttgaatgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTGATCTACGATGTACGTGCACGCCCTCATTTAGTAGAGAGTACATCAGGGA

Basic information

species Glycine max
transcript GLYMA11G11670.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11670.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0048g02350.t01 (Vitis vinifera), 3'ss of exon 3
ttttcccaaacta-atcacttcccaagcccacagctagagacctatat-tgactagtaatcttattgcaattatatcaatatagtatgccttt-tga---atgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTGATCTACGATGTACGTGCACGCCCTCATTTAGTAGAGAGTACATCAGGGA
|||||     ||  ||||||    ||  |   |  |   |   |   | |   | || || | |  | || |  || |  | |  || | ||  ||    |||||||| |||||||| ||||| ||  | ||||| || ||||| || ||||| || ||||| ||||| ||||||||||||||| | || |||||||| |||||||
ttttcttttcctgcatcact----aattctgtaatttctgtttttcctgttgtttgtcat-tcaccgtaact-cattagaacatcatactttcatgggatatgcagGTTTATCCTGAGGGGACTCACCTGATGATCCCATGGTTTGAAAGGCCAGTTATCTATGATGTCCGTGCACGCCCTCATCTGGTGGAGAGTACTTCAGGGA

upper sequence: GLYMA11G11670.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S41_59V6.1 (Physcomitrella patens), 3'ss of exon 1
---ttttcccaaactaatc--acttcccaagcccacagctagagacctatattgactagtaatcttattgcaattatatcaat-atagtatgccttttgaatg------cagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTGATCTACGATGTACGTGCACGCCCTCATTTAGTAGAGAGTACATCAGGGA
     |     |   | |   | || |   |  |   | |        || | || | ||  |    ||   ||| |  | ||  | |      |   | |||      ||||| ||||| || || || ||| |||||||||| |||||||| ||||||||||| || ||||| |||||||| ||| |  | || ||||| || || ||||
gtgagtgagtgagtgagtgtgaattgcattggtctttgatgagacggaatttggatttgttttagggtttggattttgacgatcgtggcggatttcgaggatggccttgcagGTGTATCCAGAGGGAACGCATTTTATGATTCCCTGGTTCGACAGGCCTGTGATATATGATGTCCGTGCACGACCTAACATTGTCGAGAGCACGTCGGGGA

upper sequence: GLYMA11G11670.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S215_63V6.1 (Physcomitrella patens), 3'ss of exon 1
-------------------------------------------------ttttcccaaactaatcacttcccaagcccacagctagagacctatattgactagtaatcttattgcaattatatcaatatagtatgccttttgaa----------tgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTGATCTACGATGTACGTGCACGCCCTCATTTAGTAGAGAGTACATCAGGGA
                                                 ||||       |  |  |   | | | ||  || | || |  | |  || |||| ||| |   ||    |  |      |   ||| || ||             ||||||| ||||| || || || ||| | |||||||| |||||||| |||||||| ||||||||||| || ||||| ||| || | || ||||| || ||||| |
gtacagtggtcgaaatcggtgctttttttttttttttttttttttttgttttttttcgcttggtttcagtctaggtcc--agtttga-atttttgctggctaggaatttgggtgtgtctggacggggttttgatggctgttaggaatggtggcttgcagGTTTATCCCGAGGGTACGCATTTCATGATTCCCTGGTTCGACAGGCCTGTCATCTACGATGTCCGAGCACGACCTAATATCGTTGAGAGCACCTCAGGAA

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|254330517|gb|GR841782.1|GR841782
EST:     GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAG                         GTCTATCCTGAAGGGACACATATTATGAGTCCTTGGTTCGAGAGGCCTGTG
genomic: GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAGgttattccat ... ttgaatgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTG
EST: gi|213608413|gb|DB972671.1|DB972671
EST:     GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAG                         GTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTG
genomic: GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAGgttattccat ... ttgaatgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTG
EST: gi|17962874|gb|BM269622.1|BM269622
EST:     GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAG                         GTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTG
genomic: GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAGgttattccat ... ttgaatgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTG
EST: gi|192326312|gb|FK017644.1|FK017644
EST:     GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAG                         GTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTG
genomic: GAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAGgttattccat ... ttgaatgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgactagtaatcttattgcaattatatcaatatagtatgccttttgaatgcagGTCTATCCTGAAGGGACACATATTATGATTCCTTGGTTCGAGAGGCCTGTGATCTACGATGTACGTGCACGCCCTCATTTAGTAGAGAGTACATCAGGGA
 tattgac  putative branch site (score: 2)
                                       tgcctttt  putative PPT
         taatcttattgcaatt  TA-rich tract