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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatatacttgaaacacaagaatgctagaactatgataatacgtggatgcatcattttttttttgttatggaccctgaaattagtcttcaaacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG

Basic information

species Zea mays
transcript GRMZM2G130332_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130332_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g37960.1 (Oryza sativa), 3'ss of exon 3
-taatatacttgaaacacaagaat-gctagaactatgataatacgtggatgcatcattttttttttgttatggaccctgaaattagtcttcaaacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG
 | ||    ||| |||       | || |   | |  | |||      ||| || |    || ||||| ||||| | |||| |||   |||   |||||||||||||  ||||| ||||| ||||||   ||||||||||||||||||| ||||||  ||
atgattggattgcaacctgttctttgccaacgccaatagaattatgatatggatgaaccattctttgtaatggagc-tgaagtta-cattcttgcatttcagCTTCAAAATTCACACTGGCGCTGGGCTAATCATTCCTGAAATACAAAATGATGGCAAG
















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|148986800|gb|EE030596.2|EE030596
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|87155814|gb|DY400603.1|DY400603
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|91052902|gb|EB163320.1|EB163320
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|93014173|gb|EB639693.1|EB639693
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTTCCTGAAATACAAAGTG
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATT-CCTGAAATACAAAGTG
EST: gi|91878422|gb|EB408379.1|EB408379
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGACATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|148961368|gb|EE012101.2|EE012101
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|71324621|gb|DR799009.1|DR799009
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|71769300|gb|DR967237.1|DR967237
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|78088914|gb|DV517307.1|DV517307
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|76286735|gb|DV026303.1|DV026303
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|78088792|gb|DV517185.1|DV517185
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|50337846|gb|CO532972.1|CO532972
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|211026296|gb|FL344450.1|FL344450
EST:     AAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: AAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|22133843|gb|BQ833933.1|BQ833933
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|71329026|gb|DR801212.1|DR801212
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|26558147|gb|CA830382.1|CA830382
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|22715577|gb|BU197842.1|BU197842
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGG
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGG
EST: gi|211442703|gb|FL002345.1|FL002345
EST:     TGCTTTGCTCCGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|76014966|gb|DT942136.1|DT942136
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|101395236|gb|EB819548.1|EB819548
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|148961806|gb|EE012586.2|EE012586
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|71443835|gb|DR824885.1|DR824885
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|26559567|gb|CA831802.1|CA831802
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|101383177|gb|EB813643.1|EB813643
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|148970899|gb|EE021693.2|EE021693
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|74233526|gb|DT641440.1|DT641440
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
EST: gi|76017579|gb|DT944749.1|DT944749
EST:     TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAG                         CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA
genomic: TGCTTTGCTCGGTTTATAGGCGAACTTGAAAATCTGCAGGGGACACATAGgtaatgcatt ... aacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgcatcattttttttttgttatggaccctgaaattagtcttcaaacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG
     atcattttttttttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taatatacttgaaacacaagaatgctagaactatgataatacgtggatgcatcattttttttttgttatggaccctgaaattagtcttcaaacatttcagCTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA