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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattactttattattgttgaatctccattggttccttaactcaacattttgtgcactttatttgcacaagtgcatgttaggttataaaccttaactgtggtttgttatgtaatattgaactttaataacttatatagttaaattttgttggtctcagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATTGTTTTTCAG

Basic information

species Glycine max
transcript GLYMA03G01850.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G01850.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g37740.1 (Oryza sativa), 3'ss of exon 3
gtgattactttattattgttgaatctccattggttccttaactcaacattttgtgcactttatttgcacaagtgcatgttaggttataaaccttaactgtggtttgttatgta-atattg--aactttaataacttatatagttaaattttgttggtctcagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATTGTTTTTCAG
                                                          |||  ||    ||  | | |     |  |  |  ||  || |  |   || | || |||  |  |   | ||  | | || |     |||| | ||     ||||   | || |||||||| |||||||| |||||||||||||| |||||| | |||||||||
---------------------------------------------------------ttttgcttaggaaaaagta-gcgttctcttggatgtttgctatactacattctttacatacaggcagggtcaaacattaatgtgtgctaattgtttta----cagAAGGTATCATACATGGCAGAACGTGTAGTTGGTACTGGTTCATTTGGTGTAGTTTTTCAG

upper sequence: GLYMA03G01850.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G109624_T01 (Zea mays), 3'ss of exon 3
gtgattactttattattgttgaatctccattggttccttaactcaacattttgtgcactttatttgcacaagtgcatgttaggttataaaccttaactgtggtttgttatgtaatattgaactttaataacttatatagttaaattttgttggtct--cagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATTGTTTTTCAG
                                                          ||  ||| |    |    | ||    || | |  ||   | | |    |  ||| | | |  |  |  | |  | ||  |  |   || |  |||||   ||||   |||| |||||||| ||||| || |||||||||||||| |||||||| ||||| |||
----------------------------------------------------------ttagttttccttcgaatttattgccctacatattttgttt-tagaacatcctgtgaaactcgaactggaaa--tcattgatcttgtttctaatggtcatacagAAGGTCTCATACATGGCGGAACGGGTTGTTGGTACTGGTTCGTTTGGTATAGTTTTCCAG

upper sequence: GLYMA03G01850.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G131853_T01 (Zea mays), 3'ss of exon 3
gtgattactttattattgttgaatctccattggttccttaactcaacattttgtgcactttatttgcacaagtgcatgttaggttataaaccttaactgtggtttgttatgtaatattgaactttaa-taacttatatagttaaattttgttggtct--cagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATTGTTTTTCAG
                                                   |    | |   |||| |    |   |||     |||  |  |  |   |  |||  | || ||  | ||||| ||| | ||| |||| |||    | |  |||||   ||||   |||| |||||||| |||   || |||||||||||||| |||||||||||||| |||
---------------------------------------------------tagatattcc-tttgaatttat---tgtcctactatttatttagaacatcattt--tgtgaaac-tcgaactgtaaatcactaatattgtt----tctaatggtcatacagAAGGTCTCATACATGGCAGAATTGGTTGTTGGTACTGGTTCGTTTGGTATTGTTTTCCAG

upper sequence: GLYMA03G01850.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0048g02010.t01 (Vitis vinifera), 3'ss of exon 3
gtgattactttattattgttgaatctccattggttccttaactcaacattttgtgcactttatttg-cacaagtgcatgttaggttataaaccttaactgtggtttgttatgtaatattgaactttaataacttatatagttaaattttgttggtctcagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATTGTTTTTCAG
                                                     | || | | |||  ||  | ||   |||   ||  |       |  |  |||||      |||        |||| || || |         || | |||||  |||||| |||| ||||||||||| || |||||||| |||||||| |||||  | |||||||||
----------------------------------------------------ttccagtatgtttatcatgactgatagttgtatttcatgagaataaggatgtttgcc-cacaatcaaagttgttaacaatttgtt-------gttattttggttgcagACAGTCTCCTACATGGCTGAGCGGGTGGTTGGCACTGGTTCCTTTGGGGTCGTTTTTCAG

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|209697171|gb|BW672936.1|BW672936
EST:     GTCAAATAATTACAACTGCCATTGGCGGTCGAGATGGACAACCAAAGCAG                         ACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATT
genomic: GTCAAATAATTACAACTGCCATTGGCGGTCGAGATGGACAACCAAAGCAGgtgattactt ... ttggtctcagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATT
EST: gi|18040392|gb|BM308686.1|BM308686
EST:     GTCAAATAATTACAACTGCCATTGGCGGTCGAGATGGACAACCAAAGCAG                         ACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATT
genomic: GTCAAATAATTACAACTGCCATTGGCGGTCGAGATGGACAACCAAAGCAGgtgattactt ... ttggtctcagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttatgtaatattgaactttaataacttatatagttaaattttgttggtctcagACAATCTCTTACATGGCTGAACGTGTGGTTGGTACTGGTTCTTTTGGTATTGTTTTTCAG
                    taataac  putative branch site (score: 1)
                                        ttttgtt  putative PPT
     tgtaatattgaacttt  TA-rich tract