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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaatgtttttacagctatgtttttttacccatgacttttgctggtataaaataccggttctagactgtcaacaatttctcacagtatttccattgccagGGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTAAGGCCTTCAATCGCCAAGGTCACGTGGCCAAACTTTGCATAGTGATCCT

Basic information

species Zea mays
transcript GRMZM2G174343_T07
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174343_T07 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g04660.2 (Oryza sativa), 3'ss of exon 6
taaatgtttttacagctatgtttttttacccatgacttttgctggtataaaataccggt--tctagac---tgtcaacaatttctcacagtatttccattgccagGGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTAAGGCCTTCAATCGCCAAGGTCACGTGGCCAAACTTTGCATAGTGATCCT
| |||       ||  |   || ||  |   |  ||| |        |   | || | |  |||| |    || | | | | | | |||  | |     | ||||||||||||||||| ||||||||| ||||||||||||| || |||||||||||||  ||  ||||||||||||| || ||||||||||||||  |||| ||
tgaatac-----cacttccattgttacatgaaaaactgtgaagtaatttgtacactgattttctaaatccatgactagattattttacacaaataatgcttccagGGTCTTTTGCTGGACTTGGATTTCTGTCACTCTACCTATCTGGCAAAATTAAGGTGTTTGATCGCCAAGGTCATGTTGCCAAACTTTGCATTATGATTCT

upper sequence: GRMZM2G174343_T07 (Zea mays), 3'ss of exon 3
lower sequence: PP1S4_56V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------------taaatgtttttacagct--atgtttttttacccatgacttttgctggtataaaataccggttctagactgtca--acaatttctcacagtatttccattgccagGGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTAAGGCCTTCAATCGCCAAGGTCACGTGGCCAAACTTTGCATAGTGATCCT
                                                            | ||  |||  |||    | |     || |   |     ||||   |      ||    |||   |  ||||  || || | |    |||||  ||    ||||| |||||||||||||||| | ||||||||||||| |  | || ||  | |    |||| |  |   |||  |     | | | ||| |   ||  | ||
gtaagtgactcacatttctctgttttcaatgaactcgtcgaaagctgcaccgtgattgacagattctttagcagtctaaagcgggatttctgtttgacattgcacattagtgttaatatttcctaatcgtcactacgatctgtt-tggtattgtca----cagGGGCTTTTGCTGGTCTTGGTTATTTGTCACTCTACTTCGCTGGGAAGTTGAGTCTCTTCGACAGGAGAGGCTATACATCAAGAGTTTTCTGGGTCCTGCT
















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|71326098|gb|DR799728.1|DR799728
EST:     AAACTTCTTAAAAGATGGGCGCAAGAGCTTTCCTAGTGGCCACACTTCGT                         GGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTA
genomic: AAACTTCTTAAAAGATGGGCGCAAGAGCTTTCCTAGTGGCCACACTTCGTgtaagtttgc ... ccattgccagGGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTA
EST: gi|76917794|gb|DV167005.1|DV167005
EST:     AAACTTCTTAAAAGATGGGCGCAAGAGCTTTCCTAGTGGCCACACTTCGT                         GGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTA
genomic: AAACTTCTTAAAAGATGGGCGCAAGAGCTTTCCTAGTGGCCACACTTCGTgtaagtttgc ... ccattgccagGGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaaataccggttctagactgtcaacaatttctcacagtatttccattgccagGGTCTTTTGCTGGTCTTGGATTTTTGTCACTCTACCTGTCAGGCAAAATTAAGGCCTTCAATCGCCAAGGTCACGTGGCCAAACTTTGCATAGTGATCCT
                               ttctcac  putative branch site (score: 2)
                                          tttccatt  putative PPT
                         aacaattt  TA-rich tract