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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT

Basic information

species Zea mays
transcript GRMZM2G477770_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G477770_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g42110.1 (Oryza sativa), 3'ss of exon 13
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT
||||||| |||   ||| ||  ||    |  ||| ||  | |||   |||| ||| | |||| ||||||| |   | | ||     | | |||||||| ||||||||||||||||||||||||||||||| ||||||||| | || || ||||||||||||||||| ||||| ||||| |  ||||| ||||| || ||||| |
gtaagtgtctt---tcatctacatgtttctcaagcatttagcaatc-taatgtcatagacttcagatgcata---atcctatttcttgt-tttcaacaatgcagATAGATAATCTTGTGAAGGGAGCATCAGGTCAGGCTGTTCAGAACCTTAATCTGATGATGGGTCTGCCAGAGAACACTGGGCTGCAATATCAACCCCTAT

upper sequence: GRMZM2G477770_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagct-atgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT
||| | | |||||  || |||||| || |||         |||||     |    || ||||||      |  |   ||||    ||  |  ||||||    |||||||||||||||||||||||||| |||||||||||| | || || || |||||||||||||| ||||||||||| |  ||||| ||||| |||||||| |
gtatgcgtcttcaaccatctttatgcc-cat-------tgtcaaactagtttcttcagacttaaag-atgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT

upper sequence: GRMZM2G477770_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G01220.1 (Glycine max), 3'ss of exon 12
------gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT
       | | |   ||   ||   | |||||  |  || | ||  |    ||| |||| |     |||   |  |||| |||  ||       || |      |||||||| |||||| | ||||||||||| || ||||| ||||| ||||| |||||| || | |||||| | || || ||| |||| || || |||| ||| || |
gtatgttttaattttttttctcctatatatccagctgaaat-tgtgtatttaatgatattatgatattattgttgacat-gactctaagtatgttgatgtgttgttgcagATTGATAATTTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT

upper sequence: GRMZM2G477770_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatac----ttaagatgca--catagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT
    ||   || |||    ||| | || | ||  ||| || |  ||||  | |     |     ||| ||| |     | ||| | || |  | || |      |||||||| |||||||| ||||||||||| || ||||| ||||| ||||| |||||| || | |||||| | || || ||| |||| || || |||| ||| || |
----gtatgttaagtt--tttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgt-tgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT

upper sequence: GRMZM2G477770_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 12
------gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT
       ||| |  | |  ||  |  || |   |       ||   || |  || | |    ||   |||       ||         | |       ||     ||||||| |||||||||||||||||||| |||||||| || ||||| ||||||||| ||||||||||| |||| |||||||  || || |  ||||||||  |||
gtatgtttaaatttcctttgttcatgttttagaattccttcatatttctagtatgaaaggttattaataatcctactatcactggctaaggtctcaaatccttgctgcagATTGATAATCTTGTGAAGGGAGCTTCTGGTCAAGCCTTGCAGAATCTTAATGTGATGATGGGATTGCCGGAGAATACAGGACTTCTCTACCAGCCATTGT

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|166680473|gb|EG322663.1|EG322663
EST:     ATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: ATAGAATACCTGGAAGGGCCATCATCATCTCTGTTgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcacatacttaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT
                          accttac  putative branch site (score: 3)
       atacttaa  TA-rich tract