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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcagcacaaaccatgaatgcttttgtaactgcaagggatactttgagtgacttccctgacatggtccctttcctttccattattcttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCTTAAAGGCAGAGTTTCCTAAAG

Basic information

species Glycine max
transcript GLYMA13G29010.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 11
gttcagcacaaaccatgaatgct-tttgtaactgcaagggatactttgagtgacttccctgacatggtccctttcctttccattattcttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCTTAAAGGCAGAGTTTCCTAAAG
  ||||  ||     | ||  || | | |    |||    ||| ||  | | ||| ||  || ||  |   ||   ||||   |||| |||    ||||||| || ||||| |||||| | || || ||||||||||||||| ||||||||||||| ||||| ||||||||||| ||||| |||||||| || ||||
-gtcaggccatgttctcaaaactatgtttgttggcagtaaatatttatattaactgcctggaaat--taatttagttttc---tatttttctgatagGATATATTTAAAGAATTCTATTTGAGCAAGTATAGTGGAAGGCGTTTGATGTGGCAAAACTCATTGGGTCACTGTGTATTAAAAGCAGAGTTCCCAAAAG

upper sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 12
lower sequence: AC155496.2_FGT009 (Zea mays), 3'ss of exon 11
---------------------------------------------gttcagcacaa-accatgaatgcttttgtaactgcaagggatactttgagtgacttccctgacatggtccctttccttt-----------------ccattattcttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCTTAAAGGCAGAGTTTCCTAAAG
                                               | || |    |   |||||  || | ||||  |         | ||| |   ||   | |  |  |||| |   | |                 |  |   |||||   |||||||| || |||||||||||| |||| || || |||||||||||| | |||||||| ||||| || || ||||||||||| || ||||| ||||| ||||
gttagtatatggccttggtggtggtagtaaatattttaacgtcagtctgagtattttagtctgaatatttgtttaacctctcccctctttctgaatactttgtttaatgttctcccctctttctgaatactttgtttaatcctctccctcttctgacagGATATATTTAAAGAGTTCTATTTAAGCAAGTACAGTGGAAGGCGTTTAATGTGGCAGAATTCTTTGGGACACTGTGTCTTGAAAGCAGACTTTCCCAAAG

upper sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 11
gttcagcacaaaccatgaatgcttttgtaactgcaagggatactttgagtgac-ttccctgacatggtccctttcctttccat-tattcttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCTTAAAGGCAGAGTTTCCTAAAG
|||   |  |||       | ||| ||||  |      | | | | |   ||| ||  || ||| |  |  ||||    | || | |   |     ||||||| ||||||||||||||| |||| || || ||||| ||| |  | |||||||||||||||||||| |||||||| ||||||||||| ||  | ||||
gttttactaaaagttc---ttcttatgtatttttttttgtttcctcgttggacgttttcttacaag--ctttttctaagctatctgtatgtttcgtagGATATCTTCAAAGAGTTCTATTTAAGCAAGTACAGTGGTAGGAGGTTAATGTGGCAAAATTCATTAGGCCACTGTGTTTTAAAGGCAGATTTCTCCAAAG

upper sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 11
--------------------------------gttcagcacaaaccatgaatgcttttgtaactgcaagggatactttgagtgacttccctgacatggtccctttcctttccattattcttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCTTAAAGGCAGAGTTTCCTAAAG
                                 ||  || |    |||  || ||||| ||     |   |||  |||| ||    |   ||   |  |   |||  || || |  |   | |  ||||| |||||||| ||||||||  | || ||||| ||||| |||||  | ||||||||||| |||||||| |||||||| || || ||||||||||| ||||
gtttggcagcctaagtgatggtttctttcaagttttggcgctgggcat--atacttttatataattatctgattttttgggttttgtttttgtgtttttttttttttttcccctgttgggtgccacagGACATTTTCAAGGAGTTCTACTTGAGCAAATACAGTGGGAGGCGATTAATGTGGCAAAACTCATTAGGACACTGTGTTTTGAAAGCAGAGTTTCCAAAAG

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|58018820|gb|CX705562.1|CX705562
EST:     TATCCACCCATGGATGTTAGACTTCCTCATGAA-TGAAATG-TTACCCAG                         GATA-TTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAGGGCGTCTGAT
genomic: TATCCACCCATGGATGTTAGACTTCCTCATGAATTG-AATGTTTA-CCAGgttcagcaca ... cttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGAT
EST: gi|19053161|gb|BM731828.1|BM731828
EST:     CGTATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATG
genomic: CGTATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcaca ... cttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATG
EST: gi|9901230|gb|BE610198.1|BE610198
EST:     CGTATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG                         GATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATG
genomic: CGTATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcaca ... cttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actttgagtgacttccctgacatggtccctttcctttccattattcttccttcagGATATTTTCAAAGAGTTCTATCTAAGTAAATATAGTGGAAGGCGTCTGATGTGGCAAAATTCATTAGGTCACTGTGTCTTAAAGGCAGAGTTTCCTAAAG
              ccctgac  putative branch site (score: 3)
                      tggtccctttcctttc  CT-rich tract
                                       attattctt  TA-rich tract