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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcagcacaaaccatgaatgctcttgtaactgcaggtgtccttgatacttgagtgacttccctgacatggtcctttcctttccattatttttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCCTAAAGGCAGAGTTTCCTAAAG

Basic information

species Glycine max
transcript GLYMA15G10030.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G10030.2 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 11
gttcagcacaaaccatgaatgctcttgtaactgcaggtgtccttgatacttgagtgacttccctgacatggtcctttcctttccattatttttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCCTAAAGGCAGAGTTTCCTAAAG
  ||||  ||     | ||  || |  |   ||   ||       ||| ||   | |  | ||||  |   |  |||  ||| |  ||||||||    ||||||| || ||||| |||||| | ||||| |||||||| |||||| ||||||||||||| ||||| |||||||||||  |||| |||||||| || ||||
-gtcaggccatgttctcaaaactatgtttgttggcagta-----aatatttatattaactgcctggaa-attaatttagttttc--tatttttctgatagGATATATTTAAAGAATTCTATTTGAGCAAGTATAGTGGAAGGCGTTTGATGTGGCAAAACTCATTGGGTCACTGTGTATTAAAAGCAGAGTTCCCAAAAG

upper sequence: GLYMA15G10030.2 (Glycine max), 3'ss of exon 11
lower sequence: AC155496.2_FGT009 (Zea mays), 3'ss of exon 11
---------------------------------------------gttcagcacaa-accatgaatgctcttgtaactgcaggtgtcctt---gatacttgagtga-----cttccctgac-----atggtcctttcctttccattatttttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCCTAAAGGCAGAGTTTCCTAAAG
                                               | || |    |   |||||  |  | ||||  |     || ||    ||||||   | |     || ||||        ||  |   ||   | |  |   | |||   |||||||| || |||||||||||| ||||||| || ||||| |||||| | |||||||| ||||| || || ||||||||| | || ||||| ||||| ||||
gttagtatatggccttggtggtggtagtaaatattttaacgtcagtctgagtattttagtctgaatatttgtttaacctctcccctctttctgaatactttgtttaatgttctcccctctttctgaatactttgtttaatcctctccctcttctgacagGATATATTTAAAGAGTTCTATTTAAGCAAGTACAGTGGAAGGCGTTTAATGTGGCAGAATTCTTTGGGACACTGTGTCTTGAAAGCAGACTTTCCCAAAG

upper sequence: GLYMA15G10030.2 (Glycine max), 3'ss of exon 11
lower sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 11
gttcagcacaaaccatgaatgctcttgtaactgcaggtgtccttgatacttgagtgac--ttccctgacatggtcctttcctttccattatttttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCCTAAAGGCAGAGTTTCCTAAAG
|||   |        | || | |||| | | || |  | |  ||| | | |   ||    ||  || ||| | |  ||          | | | |     ||||||| ||||||||||||||| ||||||| || ||||| ||| |  | |||||||||||||||||||| ||||||||  |||||||||| ||  | ||||
gttttac--------taaaagttcttctta-tgtatttttttttgtttcctcgttggacgttttcttacaagctttttctaagctatctgtatgtttcgtagGATATCTTCAAAGAGTTCTATTTAAGCAAGTACAGTGGTAGGAGGTTAATGTGGCAAAATTCATTAGGCCACTGTGTTTTAAAGGCAGATTTCTCCAAAG

upper sequence: GLYMA15G10030.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 11
gttcagca---caaaccatgaatgctct-------tgtaactgcaggtgtccttg---atacttgagtgacttccctgacatggtcctttcctttccattatttttccttc-------------agGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCCTAAAGGCAGAGTTTCCTAAAG
|||  |||    ||   |||  | || |       ||   |||    | | |||    ||| ||   ||| ||    |   | ||  ||   |||   || ||||| |  |             |||| |||||||| ||||||||  | |||||||| |||||||||||  | ||||||||||| |||||||| ||||||||  | || ||||||||||| ||||
gtttggcagcctaagtgatggtttctttcaagttttggcgctgggcatatacttttatataattatctgattttttgggttttgtttttgtgtttttttttttttttcccctgttgggtgccacagGACATTTTCAAGGAGTTCTACTTGAGCAAATACAGTGGGAGGCGATTAATGTGGCAAAACTCATTAGGACACTGTGTTTTGAAAGCAGAGTTTCCAAAAG

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|19934696|gb|BQ079726.1|BQ079726
EST:     CCTCATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: CCTCATGAATTGAATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
EST: gi|58020712|gb|CX707454.1|CX707454
EST:     ATATCCACCCATGGATGTTAGACTTCCTCATGAA-TGAAATGTTTACCAG                         GATATTTTCAAGGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: ATATCCACCCATGGATGTTAGACTTCCTCATGAATTG-AATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
EST: gi|151404598|gb|EV274412.1|EV274412
EST:     CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
EST: gi|193438644|gb|FK401879.1|FK401879
EST:     CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAGTGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
EST: gi|7028742|gb|AW458525.1|AW458525
EST:     CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
EST: gi|58020543|gb|CX707285.1|CX707285
EST:     CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
EST: gi|151395410|gb|EV265287.1|EV265287
EST:     CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: CATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
EST: gi|17400275|gb|BM177057.1|BM177057
EST:     CATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG
genomic: CATGAATTGAATGTTTACCAGgttcagcaca ... tttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacttgagtgacttccctgacatggtcctttcctttccattatttttccttcagGATATTTTCAAAGAGTTCTATCTAAGCAAATATAGTGGGAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCCTAAAGGCAGAGTTTCCTAAAG
               ccctgac  putative branch site (score: 3)
                       tggtcctttcctttcc  CT-rich tract
                                  tttccattattttt  TA-rich tract