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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGTCTTGCATACAGTGACGGCATCAGACCAGTCGAGCCAGCAAGAATGGCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctagaaggcgaataagaattttacagtagctgtaggatttgtttttaatattttcgtgatctgcccccaactttgcttgtggtctaagaagcttt...

Basic information

species Zea mays
transcript GRMZM2G006468_T03
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006468_T04 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os08g26870.4 (Oryza sativa), 5'ss of exon 8
GAAGTCTTGCATACAGTGACGGCATCAGACCAGTCGAGCCAGCAAGAATGGCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctagaaggcgaataagaattttacagtagctgtaggatttgttttta-atattttcgtgatc-tgcccccaactttgcttgtggtctaagaagcttt---
|||| |||||||||||||| ||||| ||| ||||||||||||||||||||||  ||||||| ||| | || || |||||||| |||||||| ||||||||||||| |    |     ||     ||||     | ||| | |||  |      | | | | |   |  | |    |   ||  || |  | | |   | ||    
GAAGCCTTGCATACAGTGATGGCATAAGATCAGTCGAGCCAGCAAGAATGGCGATAGCAGCCGGCATGTCTGACGGGTTGTTGTTTACAGAACTTGACAGgtattgttatggaaatcta-----tttatgactgttgttgaattcatgaaagcacaatgttgcagtagtactggaattctttgttctactttcactggtttgtgc
















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|33100890|gb|CF060850.1|CF060850
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|14244855|gb|BG842793.2|BG842793
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|13562234|gb|BG550454.1|BG550454
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCGAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|16925921|gb|BM078989.1|BM078989
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|76010925|gb|DT938095.1|DT938095
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|14243138|gb|BG840841.2|BG840841
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|116813437|gb|EC855888.1|EC855888
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|60353604|gb|DN220577.1|DN220577
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|13178078|gb|BG349336.1|BG349336
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGGTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCT
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCT
EST: gi|211186706|gb|FL252851.1|FL252851
EST:     CAGTAGCAGCTGGCCTATCAGAATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: CAGTAGCAGCTGGCCTATCAGA-TGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|71774336|gb|DR972214.1|DR972214
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|60346391|gb|DN213364.1|DN213364
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|89755425|gb|DY685846.1|DY685846
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|60355084|gb|DN222057.1|DN222057
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|33100633|gb|CF060593.1|CF060593
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|18650378|gb|BM499197.1|BM499197
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|211436290|gb|FL481825.1|FL481825
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|28984501|gb|BQ539125.2|BQ539125
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|60358728|gb|DN225701.1|DN225701
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|60353656|gb|DN220629.1|DN220629
EST:     GCAGAAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|33102029|gb|CF061989.1|CF061989
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|13178561|gb|BG349819.1|BG349819
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|13177701|gb|BG349130.1|BG349130
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|13177698|gb|BG349129.1|BG349129
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|211507463|gb|FL431647.1|FL431647
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|211505179|gb|FL436188.1|FL436188
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|13249994|gb|BG360897.1|BG360897
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
EST: gi|16377885|gb|BI992166.1|BI992166
EST:     GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAG                         ACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA
genomic: GCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctaga ... tttttgttagACCCGATGGACAGGCATCTGTTGAGGCTCAAGAGTTTGGATTGGTGAAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGTCTTGCATACAGTGACGGCATCAGACCAGTCGAGCCAGCAAGAATGGCAGTAGCAGCTGGCCTATCAGATGGGTTGTTATTTACAGAGCTTGACAGgtattctagaaggcgaataagaattttacagtagctgtaggatttgtttttaatattttcgtgatctgcccccaactttgcttgtggtctaagaagcttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT