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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

atatccttcctctctatgttctaactctgactcgccgtgtttttaagttccagctctcttttttcgtaattttttatgttttgtgttgaattctgtgatccttaattgttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGT

Basic information

species Glycine max
transcript GLYMA10G05260.1
intron # 1
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G05260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G53520.4 (Arabidopsis thaliana), 3'ss of exon 1
atatccttcctctctatgttctaactctgactcgccgtgtttttaagttccagctctcttttttcgtaattttttatgttttgtgttgaattctgtgatccttaattgttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGT
       || |     | || | |   |   |       | |||   ||     | | |||||   || || || || |  ||  |    ||    |||||||||   | |  ||||||||| ||||| |||||||| || || ||| | || ||||| |||||| ||||||| ||||||||||| || || || ||||| || || || |      
------ctcttacaattattgtgatatttcgtgatgaaatgtttccattgggaatgtgtttttctcta-ttgttgatatgatgattctggtt----gatccttaaccatagTTTTACAAGACAAATGTAATGGGCACTCTCAATATGTTGGGTCTTGCAAAGAGAGTTGGGGCAAGGTTTCTGCTCACCAGCACAAGTGAAGTCTATGGAG------

upper sequence: GLYMA10G05260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G53520.1 (Arabidopsis thaliana), 3'ss of exon 1
atatccttcctctctatgttctaactctgactcgccgtgtttttaagttccagctctcttttttcgtaattttttatgttttgtgttg-aattctg--tgatccttaattgttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGT
                     | | | |||     |||| |   | ||| |  |  |     |  ||  || | |||  ||  | |    ||||||  ||||||||||   | |  ||||||||| ||||| |||||||| || || ||| | || ||||| |||||| ||||||| ||||||||||| || || || ||||| || || || |||||  
------------------caattattgtgatatttcgtgatgaaatgtttc--cattgggaatgtgtttttctctattgttgatatgatgattctggttgatccttaaccatagttttacAAGACAAATGTAATGGGCACTCTCAATATGTTGGGTCTTGCAAAGAGAGTTGGGGCAAGGTTTCTGCTCACCAGCACAAGTGAAGTCTATGGAGATCCCC

upper sequence: GLYMA10G05260.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0040g02710.t01 (Vitis vinifera), 3'ss of exon 2
atatccttcctctctatgttctaactc-tgactcgccgtgtttttaagttccagctctcttttttcgtaattttttatgttttgtgttgaattctgtgatccttaattgttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGT---
                 || | || |  ||| |      |  || ||   |||  | |    ||  || ||||| |    ||||    ||  ||| | |||||| | |||  | ||||||||| |||||||||||||| || |||||| | |||||||| ||||| |||||||| |||||| |||| || ||||| ||||| ||||| ||||| ||     
--------------agggtgccaaatgatgaataatttaggattcaaaaaccaaatgtaaggtta-gtgattttgtgaaatttg----gatctcttttatccttgactgt--gattacaagACAAATGTGATGGGCACCCTGAACATGTTGGGCCTTGCAAAGAGGATTGGGGCAAGGTTTTTGCTCACAAGTACAAGTGAAGTTTATGGTGACCCCCTTG

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|16278830|gb|BI943117.1|BI943117
EST:     CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATC                         AAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT
genomic: CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATCatatccttcc ... gttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT
EST: gi|254314594|gb|GR829587.1|GR829587
EST:     CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATC                         AAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT
genomic: CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATCatatccttcc ... gttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT
EST: gi|8283259|gb|BE020820.1|BE020820
EST:     CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATC                         AAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT
genomic: CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATCatatccttcc ... gttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT
EST: gi|42722441|gb|CK768341.1|CK768341
EST:     CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATC                         AAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT
genomic: CGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATCatatccttcc ... gttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgtaattttttatgttttgtgttgaattctgtgatccttaattgttggcttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGAGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGT
 atccttaat  putative branch site 
     aattttttatgttttg  TA-rich tract