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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttctggacccttctgcttatattttccgaacatatagtttctacacgaaaattagtgaaatagctgtaaagaagttcattgttgatgtttggtt...

Basic information

species Zea mays
transcript GRMZM2G107575_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107575_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os10g41510.1 (Oryza sativa), 5'ss of exon 5
TCTCGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttctgg-acccttctgcttat-attttccgaa---catatagtttct-acacgaaaattagtgaaatagctgtaaagaagttcattgttgatgtttggtt
| || ||||||||||| ||||||||   ||| ||||||||||||||||||||||| || |  |   |    |  || ||| ||| | |  |   ||  |  ||||| |  || || ||| | |||| | | |    ||| |   | ||| ||       
TTTCCTTCAAGCTATATGATATGGACAACACTGGGTTTATTGAACGAAAGGAGgtaatgtcttactatttctgggcctatgattctgcatatgccaactgttttctgattcggaatttaataaaatggttatgccaaagatatgtattggtgg------
















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|86466680|gb|DY233050.1|DY233050
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|211255132|gb|FL091665.1|FL091665
EST:     TTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: TTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|91053272|gb|EB163690.1|EB163690
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|78085933|gb|DV514326.1|DV514326
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|14203857|gb|BG837534.1|BG837534
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|211199934|gb|FL305445.1|FL305445
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCA
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCA
EST: gi|149016909|gb|EE045638.2|EE045638
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|76018012|gb|DT945182.1|DT945182
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|71427887|gb|DR808937.1|DR808937
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|78085932|gb|DV514325.1|DV514325
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTAGGAGAATCAGAAATGAGGCTATCT
EST: gi|91052665|gb|EB163083.1|EB163083
EST:     CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAG                         GTAAAGCAGATGTTAATTGCTCTCCTA
genomic: CGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttct ... actggtgcagGTTAAGCAGATGTTAATTGCTCTCCTA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTCGTTCAAGCTATACGATATGGATGGCACAGGGTTTATTGAACGAAAGGAGgtgattttctggacccttctgcttatattttccgaacatatagtttctacacgaaaattagtgaaatagctgtaaagaagttcattgttgatgtttggtt

- - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaagaa