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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacccttttttcaattgattacttggttgtgagatttgtagtttgctaattttagttgaatgttttttattagATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTACCATCGGAATCCTTTTCCAATGTTCTTCTTACGGGGTCTGAATGTGTCAC

Basic information

species Glycine max
transcript GLYMA03G07460.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os05g28180.3 (Oryza sativa), 3'ss of exon 7
------------------------------------------------------------------------gtatgacccttttttcaattgattac--------ttggttgtgaga---tttgtagtttgctaattttagttgaa--tgtt--------ttttattagATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTACCATCGGAATCCTTTTCCAATGTTCTTCTTACGGGGTCTGAATGTGTCAC
                                                                        | |||||   ||| || | | | | |        ||| || | |||   ||| ||  |  |||   ||  || ||  ||||        |||||| ||||||| ||||||||||| || || ||||| |||||| | ||  | || ||||| ||||||||||| |||||||| |||  ||| || |||||||| || |
gtaattcttcatattttcataatccagcatgatttttaaaaacctctgtagctgtaattttatgagtaaaaagcatgacagatttatctaattagtgcagtttggtttgcttttaagaaactttttaagtcactatcatttcttcaatctgttgctttcaattttatcagATTGGTCTGGCAATGTCCCCATTAAGCAACAACTCCTTGTTTCTTGATTACCACCGGAATCCTTTCCCAATGTTTTTCCAACGAGGCCTGAATGTTTCCC

upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 15
---------------------gtatgacccttttttcaattgattacttggttgtgagatttgtagtttgctaattttagttgaatgtttt-----ttattagATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTACCATCGGAATCCTTTTCCAATGTTCTTCTTACGGGGTCTGAATGTGTCAC
                     | || ||| |||   |  |   || |||  || ||| |  ||  |||      ||| |      |  |||     || | ||||||| ||||| ||||| || |||||||| |||||| ||||  | ||||| ||||| || |||||||||| |||||||  ||| ||||||||||| ||| 
aggcaacaccaccagcaaatggcataaccttttgcact-tcagtttctttattttgaaagatgatgttcctc--tttcaacctgttactttaaatcttgtcagATTGGTCTGGCGATGTCCCCATTGAGCAACAACTCCTTATTTCTTGACTATCATCGCAACCCTTTTCCAACGTTCTTCCAACGAGGTCTGAATGTCTCAT

upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 3'ss of exon 15
----------gtatgacccttttttcaattgatt-------acttggttgtgagatttgtagtttgctaattttagttgaatgttttttattagATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTACCATCGGAATCCTTTTCCAATGTTCTTCTTACGGGGTCTGAATGTGTCAC
            ||||  || |||| |||  ||        ||||| || |   ||  |||  |   |   | |  ||| |||||  |||  ||||||| ||||| ||||||||| ||||||| || ||| | || || ||||| ||||||||||||||||| ||||| ||| | ||||| || ||||| || |
gtaaaaagggagatgatgctgttttgaatatatctacactgacttgattattccata-gtatctgattggctgtgattgcatgttggttac-agATTGGTCTGGCTATGTCTCCTCTGAGCAACAATTCCTTGTTTTTGGACTATCATCGGAATCCTTTTCCTATGTTTTTCCTTCGGGGCCTCAATGTTTCCC

upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 15
lower sequence: PP1S168_82V6.1 (Physcomitrella patens), 3'ss of exon 15
------------------------------------------------------gtatgacccttttttcaat-tgat-tacttggttgtgagatttgtagtttgctaatttta-gttgaatgttttttatt---agATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTACCATCGGAATCCTTTTCCAATGTTCTTCTTACGGGGTCTGAATGTGTCAC
                                                       |  || || |  |  |   |||  ||   || ||  |||| | |   |  | | |  || |||     || |  |||   |||||||  |||| ||||||||||| ||||| |||||||| ||| ||||||||||||| |||||||| || |||||||| |  || ||||| || || ||  
gtgtggcactcttcctctaagattattgcttgatctttactctccgtctctcagatgagatccatcatatagggtgacataaccgggtgaaagatatatctatcacgactcatatgtttctcattatcgatttacagATTGGATTGGCCATGTCTCCTTTAAGCAACAACTCCCTTTTCCTAGACTACCATCGCAATCCTTTCCCCATGTTCTTTTCTCGAGGTCTCAACGTATCGT

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|58017264|gb|CX704006.1|CX704006
EST:     TCAATTTGAAAAAATCTCCCGTGCTTCAATATTTATATTATTTAGCCCAG                         ATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTAC
genomic: TCAATTTGAAAAAATCTCCCGTGCTTCAATATTTATATTATTTAGCCCAGgtatgaccct ... tttttattagATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTAC
EST: gi|151401309|gb|EV271123.1|EV271123
EST:     GAAAAAATCTCCCGTGCTTCAATATTTATATTATTTAGCCCAG                         ATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTAC
genomic: GAAAAAATCTCCCGTGCTTCAATATTTATATTATTTAGCCCAGgtatgaccct ... tttttattagATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacttggttgtgagatttgtagtttgctaattttagttgaatgttttttattagATTGGGCTGGCAATGTCTCCTTTGAGCAATAACTCCCTATTCTTAGACTACCATCGGAATCCTTTTCCAATGTTCTTCTTACGGGGTCTGAATGTGTCAC
                         tgctaat  putative branch site (score: 2)
                                            ttttttatt  putative PPT
                            taattttagttgaatg  TA-rich tract