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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTCATGGCATTCGGCGGAGGACTACGGTTCTGCGTTGGAGCAGACTTCAGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttttctctttcgcagtccaacttgagggcatatttggggaagtccaaatccttgtcatcccatatctctgtgatgtgccaaccaattgaagtaacatttcggaacagcgatggctgaaatttttggtctcgcaaacgagagcgaaggagatgaaataattgcgcttttctttttcag

Basic information

species Oryza sativa
transcript LOC_Os04g48210.1
intron # 8
splice site 5'
intron type U2

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|88455187|gb|CI516825.1|CI516825
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88673589|gb|CI727702.1|CI727702
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTACAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88559130|gb|CI489683.1|CI489683
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88904595|gb|CI711894.1|CI711894
EST:     AGCAAGCTACAATTGGCTATTTCCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTACTCCGAACTCCAGGACTACAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88954725|gb|CI720204.1|CI720204
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88675847|gb|CI729419.1|CI729419
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGAATAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88593610|gb|CI713564.1|CI713564
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88455213|gb|CI516851.1|CI516851
EST:     TTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: TTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88671660|gb|CI725458.1|CI725458
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88550055|gb|CI479996.1|CI479996
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88691724|gb|CI733802.1|CI733802
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88851004|gb|CI096394.1|CI096394
EST:     AGCAAGCTACAATGGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88525439|gb|CI453445.1|CI453445
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|86484064|gb|CI126697.1|CI126697
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88693843|gb|CI735420.1|CI735420
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88905628|gb|CI712927.1|CI712927
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88303907|gb|CI512981.1|CI512981
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88468572|gb|CI515054.1|CI515054
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAANGCAGGGTAGTCCGAACTCCAGGACTAGAAT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAA-GCAGGGTAGTCCGAACTCCAGGACTAGAAT
EST: gi|88972283|gb|CI717024.1|CI717024
EST:     ACCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|86500214|gb|CI142847.1|CI142847
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAACAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88973865|gb|CI718273.1|CI718273
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88523351|gb|CI451165.1|CI451165
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88956505|gb|CI092748.1|CI092748
EST:     AGCAAGCTACAATGGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88674089|gb|CI728202.1|CI728202
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTACTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88669475|gb|CI723393.1|CI723393
EST:     AGCAAGCTACAATTGGCTATCTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88593797|gb|CI713751.1|CI713751
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|86482957|gb|CI125590.1|CI125590
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATC
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
EST: gi|88687952|gb|CI731528.1|CI731528
EST:     AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAG                         GTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT
genomic: AGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttt ... tctttttcagGTGGATACCGCTGGGAGCAAGCAGGGTAGTCCGAACTCCAGGACTAGAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTTCATGGCATTCGGCGGAGGACTACGGTTCTGCGTTGGAGCAGACTTCAGCAAGCTACAATTGGCTATTTTCCTCCATTTCCTTGTGACAAAATACAGgtagtgtttttctctttcgcagtccaacttgagggcatatttggggaagtccaaatccttgtcatcccatatctctgtgatgtgccaaccaattgaagtaacatttcggaacagcgatggctgaaatttttggtctcgcaaacgagagcgaaggagatgaaataattgcgcttttctttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT