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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtgactagacagtattttgaacattctagccctaccagcaactataaatcaatgtaaccatggttcttttgcctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCATGTTGTTAAACTTGGTGTCAATGTTGATACGAG

Basic information

species Zea mays
transcript GRMZM2G092129_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G092129_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 1
gtatggtgactagacagtattttgaacattctagccctaccagca-actataaatcaatgtaaccatggttcttttgcctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCATGTTGTTAAACTTGGTGTCAATGTTGATACGAG
     ||||   || |||||||||||||||  |   || | | || | ||||||  |   | |||||| ||| | | ||||| |||||||||||||| |||||||||||||||| ||||||  |||||||||||||| |||||||  ||||||||||||||||||||| ||
-----gtgagatgaaagtattttgaacatttaatttcttctaacagattataaa--atcctgaccatgattcctct-cctttaattagGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAG
















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|211220819|gb|FL457378.1|FL457378
EST:     CCATTGGAGSAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGAT                         GACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT
genomic: CCATTGGAGGAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGATgtatggtgac ... ctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT
EST: gi|211335355|gb|FL444766.1|FL444766
EST:     CCATTGGAGGAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGAT                         GATACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT
genomic: CCATTGGAGGAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGATgtatggtgac ... ctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT
EST: gi|71331353|gb|DR802511.1|DR802511
EST:     CATTGGAGGAAAGC-TAACTGCAGTTCCTGGACTTTCTGACATGATTGAT                         GACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGC-ACACAGGCAT
genomic: CATTGGAGGAA-GCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGATgtatggtgac ... ctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT
EST: gi|211220820|gb|FL457379.1|FL457379
EST:     CCATTGGAGGAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGAT                         GACACTGTCGATTCAATTGTTTGTGATATGCTCTTGTGGCCACACAGGCAT
genomic: CCATTGGAGGAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGATgtatggtgac ... ctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT
EST: gi|111145863|gb|EE258112.1|EE258112
EST:     CCATTGGAGGAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGAT                         GACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT
genomic: CCATTGGAGGAAGCCTAACTGCAGTTCCTGGACTTTCTGACATGATTGATgtatggtgac ... ctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccctaccagcaactataaatcaatgtaaccatggttcttttgcctttgattagGACACTGTCGATTCAATTGTTTCTGATATGCTCTTGTGGCCACACAGGCATGTTGTTAAACTTGGTGTCAATGTTGATACGAG
                        atgtaac  putative branch site (score: 3)
                                    ttcttttgccttt  putative PPT
               tataaatcaatgtaa  TA-rich tract