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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataggcatagttctataatttgcagggttaatcttctgtgatagctgtttgagttagtgatacaatcatggcttgttctgtgcctttagATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTT

Basic information

species Glycine max
transcript GLYMA04G06310.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G06310.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g51540.1 (Oryza sativa), 3'ss of exon 6
-----------------gtataggcatagttctataatttgcagggttaatcttctgtgatagctgtttgagttagtgatacaatcatggcttgttctgtgcctttagATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTT
                  |  |||  || ||||     ||| |   ||||  ||      | |||||     || ||       | | ||||||         ||||| |  | || |||  ||| | | |||||||  ||||||| |||||||||||||||||| | |||||||||||||| ||||||  | | ||| | || ||| 
gtgccctttattacctgattcaggattatttcttatccttgtaa--ttaaattttgcattttgctgtacacatttgtttc----tgagggcttgccaatccattttagGTAATAGACATTCCATCCGGTCCAGGACCACATGAGATCCAGTATGATGAAGAATGGCTTGCAATAACACGGAAATTCAACAATGTTTTCTCCTTAACTC

upper sequence: GLYMA04G06310.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G461145_T01 (Zea mays), 3'ss of exon 7
gtataggcatagttctataatttgcagggttaatcttctgtgatagctgtttgagttagtgatacaatcatggctt----gtt--ctgtgcc--tttagATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTT
         || |   ||   || |||| | | | | |    |||    |   ||||  |  ||||    ||  ||    |||  |  | ||  ||||| || | || |||  |||  || ||||||| ||||| || |||||||||||||||||| | ||||||||||| || ||||||  | | ||||||||  |  
--------gtactctcatttctttcaggat-actttccatcaatattaataaaagtttttagtacatgtttgtttttgaagttatccattccattttagGTTATAGACATTCCATCCAATCCAGGACCATATGAAATCCAGTATGATGAAGAATGGCTTGCAATAACACGAAAATTCAACAGTGTTTTCCCTTTAGCAC

upper sequence: GLYMA04G06310.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g08180.t01 (Vitis vinifera), 3'ss of exon 6
gtataggcatagttctataatttgcagggttaat--cttctgtgatagctgtttgagttagt--gatacaatcatggcttgttctgtgc---ctttagATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTT
   ||| | | ||| | |   ||   |  ||||   ||| |    |||   ||   |  | |   || |    || | | || ||| ||    |||||||||| ||||| ||| |||   ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| |||| || ||||| ||  
--gtagcccttgttattttcatttatgttttaagggcttttaatgtagtcattgctggaaattaaatgcctcaattggtggtactgagcgagttttagATTGTTGAAATAGAAACAGTGCCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTGGCAATAACACGGAAGTTCAACTCTATCTTTCCTTTAACCA

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|21256328|gb|BQ453216.1|BQ453216
EST:     CAAAATTTCTTGCACTGGATAAATGTATTCCTGGGCGTGATTTCTTACAG                         ATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAA
genomic: CAAAATTTCTTGCACTGGATAAATGTATTCCTGGGCGTGATTTCTTACAGgtataggcat ... gtgcctttagATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAA
EST: gi|51337820|gb|CO981686.1|CO981686
EST:     CAAAATTTCTTGCACTGGATAAATGTATTCCTGGGCGTGATTTCTTACAG                         ATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAA
genomic: CAAAATTTCTTGCACTGGATAAATGTATTCCTGGGCGTGATTTCTTACAGgtataggcat ... gtgcctttagATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgtgatagctgtttgagttagtgatacaatcatggcttgttctgtgcctttagATTGTGGAAATTGAATCAGATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTT
                                              tgccttt  CT-rich tract
                         atacaat  TA-rich tract