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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtcagctttcgtaaattgttgcacctgagaccatacaatgacattcttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAACAGCAGATAGATGAGAGGTGCCAACAG

Basic information

species Zea mays
transcript GRMZM2G074790_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G074790_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os05g46290.1 (Oryza sativa), 3'ss of exon 10
gttttgtcagctttcgtaaattgttgcacctgagac-catacaatgacattcttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAACAGCAGATAGATGAGAGGTGCCAACAG
  |||||||   |||  ||||| || |||||||||  || ||| ||| | | | |||| ||||| |||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||| |||||||| ||||||
-gtttgtcaatcttcacaaattatttcacctgagaaacagacagtgagaatttcctttacagGTTACTGTATCCCTTGATGATACTATCATTCTAGATGGTGGAGGCGACAAACAGCAGATAGAGGAGAGGTGTCAACAG
















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|18450678|gb|BM428956.1|BM428956
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAG                         GTACCTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAC
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
EST: gi|67028320|gb|CO457069.1|CO457069
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAACAAG                         GTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
EST: gi|87152753|gb|DY397542.1|DY397542
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAG                         GTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
EST: gi|19822484|gb|BQ048508.1|BQ048508
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAG                         GTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
EST: gi|31350305|gb|CD434662.1|CD434662
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAG                         GTAACTGTATCCCTTGATGATACTATCATCCT
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCT
EST: gi|211181730|gb|FL012621.1|FL012621
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAG                         GTAAGTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
EST: gi|18649956|gb|BM498775.1|BM498775
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAG                         GTANCTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTG
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTG
EST: gi|22489691|gb|BU049614.1|BU049614
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCCCTGCTAAAAAG                         GTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
EST: gi|87153562|gb|DY398351.1|DY398351
EST:     GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAG                         GTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA
genomic: GTCTTGATCTTGGCAAAGTTCAATTACAAATGCTTGGCACTGCTAAAAAGgttttgtcag ... ttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagctttcgtaaattgttgcacctgagaccatacaatgacattcttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAACAGCAGATAGATGAGAGGTGCCAACAG
                                        cattcttcttt  CT-rich tract
          taaattgtt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttgtcagctttcgtaaattgttgcacctgagaccatacaatgacattcttctttgcagGTAACTGTATCCCTTGATGATACTATCATCCTAGATGGTGGAGGTGACAAACAGCAGATAGATGAGAGGTGCCAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG