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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtggctagaaaagagctcattctgatttactttttctaggatggataattaactattagaatgttctctttctttggtagGATATTTGCTTTGGCAACTGTCCTAAGTTCGGTGCTTATCTACAACCTTCCTGAGACG

Basic information

species Zea mays
transcript GRMZM2G019361_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g58240.1 (Oryza sativa), 3'ss of exon 5
gtttgtggctagaaaagagctc--------attctgatttactttttctaggatggataattaac-----------tattagaatgttc--tctttctttggtagGATATTTGCTTTGGCAACTGTCCTAAGTTCGGTGCTTATCTACAACCTTCCTGAGACG
|| ||||   ||||| |   |          |||  |||||||||||||| ||| || |  | ||           ||| |   | |||  |  || | ||| |||||||||||||||||||||||| | ||||| ||||| |||||||||||||||||||||
gtctgtgtgcagaaatggaatgtgaagaagtttcccatttactttttctatgatagaaaggttacattgttgttggtatcattttattcatttcttttgtggcagGATATTTGCTTTGGCAACTGTCTTGAGTTCAGTGCTAATCTACAACCTTCCTGAGACG

upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 5
gtttgtggctagaaaagagctcattctgatttactttttctaggatggataattaacta-ttagaatgttctc----tttctttggtagGATATTTGCTTTGGCAACTGTCCTAAGTTCGGTGCTTATCTACAACCTTCCTGAGACG
  |  | |||   | |     |||||||  ||   | ||  |  ||  || |||   || || |  | ||||     || |||| | |||||||||||||||||||||||| | ||||| ||||| || || ||  | || ||||||
-gtaattgctttcagatcatgcattctgtgttctgtgttgaatcatatatgattgtttagttggctttttcttgtgtttgcttttgcagGATATTTGCTTTGGCAACTGTCTTGAGTTCCGTGCTCATATATAATTTGCCCGAGACG

upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 4
gtttgtggctagaaaagagctcattctgatttactttttctaggatggataattaacta-ttagaatgttctc----tttctttggtagGATATTTGCTTTGGCAACTGTCCTAAGTTCGGTGCTTATCTACAACCTTCCTGAGACG
  |  | |||   | |     |||||||  ||   | ||  |  ||  || |||   || ||||  | || |     || |||| | |||||||||||||||||||||||| | ||||| ||||| || || ||  | || ||||||
-gtaattgctttcagatcatgcattctgtgttctgtgttgaatcatatatgattgtttagttagctttttgttgtgtttgcttttgcagGATATTTGCTTTGGCAACTGTCTTGAGTTCTGTGCTCATATATAATTTGCCCGAGACG

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|31361636|gb|CD445993.1|CD445993
EST:     GACACTGAAGGATTTGAAAGTGTTGGGAAATCAAATGTGTATGATGATAG                         GATATTTGCTTTGGCAACTGTCCTAAGTTCGGTGCTTATCTACAACCTTCC
genomic: GACACTGAAGGATTTGAAAGTGTTGGGAAATCAAATGTGTATGATGATAGgtttgtggct ... tctttggtagGATATTTGCTTTGGCAACTGTCCTAAGTTCGGTGCTTATCTACAACCTTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttactttttctaggatggataattaactattagaatgttctctttctttggtagGATATTTGCTTTGGCAACTGTCCTAAGTTCGGTGCTTATCTACAACCTTCCTGAGACG
                     aattaac  putative branch site (score: 2)
                                    tgttctctttcttt  putative PPT
                   ataattaactattaga  TA-rich tract