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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaatcgtgatagtccaatgatcagattttaagattgcactagttgcctgatgacttattaatactagctatcagcatctcatgtttggtggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAGTTCTATCTGCGACACAGAGAAAGCACGGCTACTATAGTTCATGAATATG

Basic information

species Zea mays
transcript GRMZM2G026869_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G026869_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g40700.2 (Oryza sativa), 3'ss of exon 4
ctaatcgtgatagtccaatgatcagatttta--agattgcactagttgcctgatgacttattaatactagct-atcagcatctcatgtttggtggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAGTTCTATCTGCGACACAGAGAAAGCACGGCTACTATAGTTCATGAATATG
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--aacaagggcactgccaagtgcatattctgcttaaaagttctttgtaaaaaatgtataacgaatactatcttaccagaagtttttttttttttaatgat-agGGTCATCATGGTGATCTCTTGCCTGAAGAAAGTAGAATATTGCTTGCGGAGTTTTATTTGCGCCACAGACAGAGCACAGCTGGCATAGTTCACGAATATG
















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|6194738|gb|AW146842.1|AW146842
EST:     CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTG                         GGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
EST: gi|60355726|gb|DN222699.1|DN222699
EST:     GAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCTTG                         GGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: GAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
EST: gi|78118115|gb|DV536502.1|DV536502
EST:     CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTG                         GGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
EST: gi|71764970|gb|DR962907.1|DR962907
EST:     CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTG                         GGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
EST: gi|78023024|gb|DV491411.1|DV491411
EST:     CAGCTGGAATCATCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTG                         GGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
EST: gi|6095632|gb|AW120299.1|AW120299
EST:     CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTG                         GGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
EST: gi|71444034|gb|DR825084.1|DR825084
EST:     CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTG                         GGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
EST: gi|5847510|gb|AW000589.1|AW000589
EST:     CAGCTGGAATCCTCATGCNCCATGCTGTTTGTGATAGAGTTTCCCGCCTG                         GGCCATCNCGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG
genomic: CAGCTGGAATCCTCATGCACCATGCTGTTTGTGATAGAGTTTCCCGCCTGgtaagtggac ... ggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctgatgacttattaatactagctatcagcatctcatgtttggtggtttatcagGGCCATCACGGTGATCTCTTGCCTGAAGAAAATAGGATATTGCTTGCTGAGTTCTATCTGCGACACAGAGAAAGCACGGCTACTATAGTTCATGAATATG
           tattaat  putative branch site (score: 2)
     atgacttattaata  TA-rich tract