Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTTTGGTGCTCGCGCCTTGACGGATTGATTTCGGTGCGCCGATGGGGCAGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcatatttttgccgcgatttttctttcgctatttagttgtactttctacgaactgcctgtatgtatcattttgttgattgtggttttgtgcttgcttgttag

Basic information

species Zea mays
transcript GRMZM2G113995_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G113995_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 1
AAGTTTGGTGCTCGCGCCTTGACGGATTGATTTCGGTGCGCCGATGGGGCAGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcatatttttgccgcgatttttctttcgctatttag----------ttgtactttctacgaactgcctgtatgtatcattttgttgattgtggttttgtg---cttgcttgttag
  |     | ||||    ||||  |||   | |      || ||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||| ||    |  |||| |     ||| | | ||   | | ||          |  |  ||| |  |      ||    | |    ||  |||||| | | | ||||   ||||||  ||||
GCGAGGAATTCTCGGTGGTTGATCGATCCGTGTTTCGCGGCGGATGGGGCAGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGGgtatgg--gtgatttttcttttttttgtttgtcaaaagtaagaagaatattctctttttttttgggtgtgttcttcgagaacttcttgattgatttttgctctgtgacgcttgctctttag
















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|211484925|gb|FL394381.1|FL394381
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211423855|gb|FL404537.1|FL404537
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|33771194|gb|CF273373.1|CF273373
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211029880|gb|FL404674.1|FL404674
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211290604|gb|FL410977.1|FL410977
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTTCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211080130|gb|FL417797.1|FL417797
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGNTCTGGATGCTGCCGGTAAAACCACCATATTGTACAA
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGG-TCTGGATGCTGCCGGTAAAACCACCATATTGTACAA
EST: gi|211418920|gb|FL421658.1|FL421658
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211461841|gb|FL417627.1|FL417627
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211212184|gb|FL397467.1|FL397467
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211266589|gb|FL404010.1|FL404010
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211141968|gb|FL418185.1|FL418185
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211156685|gb|FL406071.1|FL406071
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTTGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211334235|gb|FL381816.1|FL381816
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211003691|gb|FL416464.1|FL416464
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211115280|gb|FL397760.1|FL397760
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211363304|gb|FL391107.1|FL391107
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211108318|gb|FL385993.1|FL385993
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211466099|gb|FL374831.1|FL374831
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|9731678|gb|BE510430.1|BE510430
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211060681|gb|FL415617.1|FL415617
EST:     AGGCGTTCCGCAAGCTGTTCGATGCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCCGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211198832|gb|FL369949.1|FL369949
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
EST: gi|211421603|gb|FL420626.1|FL420626
EST:     AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGG                         GTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG
genomic: AGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcat ... tgcttgttagGTTGTGATGCTTGGTCTGGATGCTGCCGGTAAAACCACCATATTGTACAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGTTTGGTGCTCGCGCCTTGACGGATTGATTTCGGTGCGCCGATGGGGCAGGCGTTCCGCAAGCTGTTCGATTCCTTCTTCGGCACCAGCGAGATGAGGgtctgctcatatttttgccgcgatttttctttcgctatttagttgtactttctacgaactgcctgtatgtatcattttgttgattgtggttttgtgcttgcttgttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG