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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATTCAGGAAAATCAGGCTGAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaaccaagagaactacaaaacatgtattatattctaattgatacacatacaatatttacattacattttatacgctctggtaaatcag

Basic information

species Oryza sativa
transcript LOC_Os06g15360.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g15360.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G035417_T03 (Zea mays), 5'ss of exon 1
---TTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATTCAGGAAAATCAGGCTGAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaac-caagagaactacaaaacatg--tattatattctaattgatacacatacaatatttacattacattttatac-----gctctggtaaatcag
   | || || || || || |||||  |||||||||||||||||||||| ||||| ||||||||  |||||||||||||||||||  | ||  |||  |||     |||   ||  |  |    ||  ||||  || |  |     ||   ||     |  |    |     | ||||| |||     |||||||| || |||
AGCTAGGTAAACAAAACCCACAAATTCTGCGGTTGATTCAGGAAAATCAAGCTGAGTTTCTCCGCTTGGTGAATGAATCTCCTGAGGGTGGTCCTGGAGGgtaagcagactgcataattatgttaagtcatgggtacttcaggtgcataattatggtaatgagtcatgggagaaattttttacattgtgctctggtgaaccag
















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|88847927|gb|CI006113.1|CI006113
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|88834598|gb|CI077881.1|CI077881
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29643187|gb|CB648194.1|CB648194
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTCCAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29657665|gb|CB653940.1|CB653940
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29669285|gb|CB665560.1|CB665560
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29643233|gb|CB648240.1|CB648240
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|300215820|gb|HO088446.1|HO088446
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGTGGCACTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTAC
EST: gi|33654536|gb|CF277150.1|CF277150
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29662304|gb|CB658579.1|CB658579
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29660321|gb|CB656596.1|CB656596
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|87015278|gb|CI275468.1|CI275468
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|86494540|gb|CI137173.1|CI137173
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|86489922|gb|CI132555.1|CI132555
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29673855|gb|CB670130.1|CB670130
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29670072|gb|CB666347.1|CB666347
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|88830186|gb|CI076442.1|CI076442
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29630613|gb|CB635622.1|CB635622
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|2431315|gb|C73735.1|C73735
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTTATGCCACAGGCACTTACAGTTA
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCT-ATGCCACAGGCACTTACAGTTA
EST: gi|300215841|gb|HO088467.1|HO088467
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGTGGCACTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|88220271|gb|CI219831.1|CI219831
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|87028194|gb|CI111888.1|CI111888
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|89197384|gb|CI010004.1|CI010004
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|14980837|gb|BI305515.1|BI305515
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|23514955|gb|BU673867.1|BU673867
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|89186903|gb|CI053306.1|CI053306
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|8859709|gb|AU097027.1|AU097027
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|218488797|gb|FG951622.1|FG951622
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGTGGCACTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|88245156|gb|CI245005.1|CI245005
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|33687246|gb|CF315485.1|CF315485
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|29631165|gb|CB636174.1|CB636174
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATATTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|87036144|gb|CI189591.1|CI189591
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|32947880|gb|BP184452.1|BP184452
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
EST: gi|8527786|gb|AU092601.1|AU092601
EST:     GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGG                         AAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC
genomic: GAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaacca ... ggtaaatcagAAACATACTAGGTCAACTAGCAGCCGCTATGCCACAGGCACTTACAGTTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATTCAGGAAAATCAGGCTGAATTTCTCCGTCTGGTGAATGAATCTCCTGATAGCGGCGCTGCTGGGGGgtaagaaccaagagaactacaaaacatgtattatattctaattgatacacatacaatatttacattacattttatacgctctggtaaatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT