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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaatgtctttctgtgctcaactatattctctatgttgtttgtttgaattgacatctcattatataatgcattttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTGCCTTCCGATTGGAAAGGCTAAG

Basic information

species Zea mays
transcript GRMZM2G043198_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043198_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g42410.2 (Oryza sativa), 3'ss of exon 6
gtatgaaatgtctttctgtgctcaactatattctctatgttgtttgtttgaattgacatctcattatataatgcattttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTGCCTTCCGATTGGAAAGGCTAAG
|||||  | | |||||  | | ||| |||||||||||  ||       ||| ||| ||| ||| |  ||| || ||||  |||||| |||||||||||||| ||||| ||||| || || ||||||||||||||||| ||||||||||| |||||||||
gtatgcta-gcctttcctt-cccaattatattctctaaatt-------tgatttgccatttcactgaatagtgtattt--ctgcagCTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAG
















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|31356807|gb|CD441164.1|CD441164
EST:     GCAGCAATCAGGGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: GCAGCAATCAGGGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|32801932|gb|CD954168.1|CD954168
EST:     TGTGTTCC-TGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: TGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|32788226|gb|CD940462.1|CD940462
EST:     GATCCTGTTGTGTTCCTTGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: GATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|76282095|gb|DV021663.1|DV021663
EST:     GCAGCAATCAGGGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: GCAGCAATCAGGGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|67038743|gb|CO464998.1|CO464998
EST:     GGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: GGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|60396979|gb|DN229798.1|DN229798
EST:     GCAGCAATCAGGGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: GCAGCAATCAGGGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|32801690|gb|CD953926.1|CD953926
EST:     GATCCCGTTGTGTTCCTTGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: GATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|6031329|gb|AW076186.1|AW076186
EST:     AAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: AAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
EST: gi|32802072|gb|CD954308.1|CD954308
EST:     GATCCTGTTGTGTTCCTTGAAAATGAACTTCT                         TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG
genomic: GATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatg ... tttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctatgttgtttgtttgaattgacatctcattatataatgcattttcctgcagTTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTGCCTTCCGATTGGAAAGGCTAAG
                   aattgac  putative branch site (score: 3)
                                          cattttcct  putative PPT
                               attatataatgcattt  TA-rich tract