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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccctctggtgaaattgttgttcctgctattgtttttgaatcctgccttgtggtagcttatatgtatctaatatggaaatctgcttgttgcaattctataggaagAACCGGAAGAAGAGAGTGATGATGATATGGGATTCGGCTTGTTTGATTAGGGACATTCTCAATGATTTGGTTAAATTTTGTGGTTCTTTACCTTTTAAGG

Basic information

species Glycine max
transcript GLYMA03G42180.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G42180.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S49_284V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaaccctctggtgaaattgttgttcctgctattgtttttgaatcctgccttgtggtagcttatatgtatctaatatggaaatctgcttgttgcaattctataggaagAACCGGAAGAAGAGAGTGATGATGATATGGGATTCGGCTTGTTTGATTAGGGACATTCTCAATGATTTG-GTTAAATTTTGTGGTTCTTTACCTTTTAAGG
       | | || || | ||   | ||  |   |  | |      | | ||    || ||||||| |   |  |||      |    | ||| || | || ||||||||||| | || ||||||||||| || ||||| ||| |||||||||||||| |   | | |||||  ||| |||  || | ||   |    |  | | |   
----ttgtgttgtaaattggtgaatgcttgtgcagagtgtttcgttttctttcgtatatcttatattttattcgtatatcttacattatattgtaactttacagGAAGAACCGAAGGAGGAGAGTGATGACGACATGGGCTTCAGCTTGTTTGATTAGAG--TTGCCCAATGGGTTGTGTTGGATCTCGTTCATGCCAAGTTCTGA---

upper sequence: GLYMA03G42180.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S28_131V6.1 (Physcomitrella patens), 3'ss of exon 3
--gtaaccctctggtgaaattgttgttcctgctattgtttttgaatcctgccttgtggtagcttatatgtatctaatatggaaatctgcttgttgcaattct-ataggaagAACCGGAAGAAGAGAGTGATGATGATATGGGATTCGGCTTGTTTGATTAGGGACATTCTCAATGATTTGGTTAAATTTTGTGGTTCTTTACCTTTTAAGG-
   |   |    | |  |    | |  ||| |   ||| |  ||    | | || |||  || ||  | |   |||| ||      |  |||| || ||  |   |||| || ||  | |||||||| |||||||| ||||||||  ||||||||||||||    ||  ||| |  |    |||||      || |   ||  ||||     
acttcgtcacgagttctatccatggcgcctccgcctgtgtcggatcttttcattctgg--gcatagttatcaataatgtg-----ttctttgtggcgatgatcgcagGAGGAGCCAAAGGAAGAGAGCGATGATGACATGGGATTTAGCTTGTTTGATTAG----ATGATCATTTGTC-AATTAAACACGACGGATGAATATTTTTTCTCAT

upper sequence: GLYMA03G42180.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S152_152V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaaccctctggtgaaattgttgttcctgct---attgtttttgaatcctgccttgtggtagcttatatgtatctaatatggaaatctgcttgttgcaattctataggaagAACCGGAAGAAGAGAGTGATGATGATATGGGATTCGGCTTGTTTGATTAGGGACATTCTCAATGATTTGGTTAAATTTTGTGGTTCTTTACCTTTTAAGG
       ||||  | |||| | |||   | |   |   | |  | |||||       | |  |   |  ||   |   ||       |   || |   ||| |  |||| || ||| | |||||||||||||| || ||||||||| | |||||||||||  ||  | || ||||  |||  |      | |  |     |   |  |   
-------tctgaaggaattttagtttgcgatcaaaaactatgcgcatcctcaaacaggatttcccctgagttagtttcatttctcattatctggtttgattttgcagGAGGAGCCGAAGGAAGAGAGTGATGACGACATGGGATTCAGTTTGTTTGATTA--GAATTGCTTAATGGGTTGAGTGGGACCTTTTATATGCCAGTGTCGAC--

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|193585777|gb|FK541219.1|FK541219
EST:     GCTCCAGCTGCTGAGGAGAAAAAGAAGGAAG                      
genomic: GCTCCAGCTGCTGAGGAG--AAA-AA-GAAGgtaaccctct ... ctatagg






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtagcttatatgtatctaatatggaaatctgcttgttgcaattctataggaagAACCGGAAGAAGAGAGTGATGATGATATGGGATTCGGCTTGTTTGATTAGGGACATTCTCAATGATTTGGTTAAATTTTGTGGTTCTTTACCTTTTAAGG
               atctaat  putative branch site (score: 3)
       ttatatgtatctaata  TA-rich tract