Sequence
atgc intronic sequence ATGC exonic sequenceTAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaaacctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G02810.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g17570.5 (Oryza sativa), 5'ss of exon 6
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaaacctgttggtacaactggtgataagtagtaaactagaaattcatg-gtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
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TAAGTGTTTGTCAAAAGGAGCAGTTGACTTTCTAGTGAAGCCTATACGTAAGAATGAACTTAAGAACCTTTGGCAGCATGTTTGGAGACGATGCCACAGTgtaagt--ttgtttttttttg-ttggcct----acct-ttaatg----tgggatcaagtccccaactc----tccgtgtaactcatagtattttgat---tctaacttctttgtctgaatattttttatgtgactaatctgaatataat----ttgtctatttgtaattcag
upper sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G095727_T04 (Zea mays), 5'ss of exon 7
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaaacctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
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------------------AGCAGTTGATTTCTTGGTAAAACCACTACGTAAGAATGAGCTTAAGAACCTTTGGCAGCATGTTTGGAGGCGATGCCACAGTGTAAGC---TGTTTGTTTTTGgtctagtt------ttttctggatattttattccacg----aaacatgagg--cgtgatttctttgagtcctcactgtgtttcctttgtgatcactctgagttgaatttgcctctttggta-ctcag-----------------------
upper sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G095727_T03 (Zea mays), 5'ss of exon 6
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaaacctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
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TAAGTGTTTGTCGAAGGGAGCAGTTGATTTCTTGGTAAAACCACTACGTAAGAATGAGCTTAAGAACCTTTGGCAGCATGTTTGGAGGCGATGCCACAGTgtaagc---tgtttgtttttggtctagtt------ttttctggatattttattccacg----aaacatgagg--cgtgatttctttgagtcctcactgtgtttcctttgtgatcactctgagttgaatttgcctctttggta-ctcag-----------------------
upper sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G005732_T02 (Zea mays), 5'ss of exon 3
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAG---AAGATGCCAAAGTgtatgtccttgctcatatatgattaat-ctgaaaacctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
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---ATGTTTGTCAAAAGGTGCTGTTGACTTTTTAGTCAAGCCTATACGTAAGAATGAACTTAAGAACCTTTGGCAGCATGTGTGGAGACAACGGTGTCACAGTgtaagttgttcatggtctggtttgaatattgtaagttctttgacgttattcatgtt---tctctgggtaaaattgtataatt--actcta-acaagagtttactta------------------------------------------------------------------
upper sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G033962_T01 (Zea mays), 5'ss of exon 3
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAA---GATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaaacctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggt--atcttactttttggtttctcatggttttccttgtttcttgttcag
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---ATGTCTGTCAAAAGGTGCTGTTGACTTTTTGGTCAAGCCTATACGTAAGAATGAACTTAAGAACCTTTGGCAGCATGTATGGAGACAACGGTGTCACAGCgtaagttgttcatggtctggtttgaatattatactttcttgaaaaaaaaactgtcaagtgataa-ttgttgcttcagtttcaaggattactcaagttttttttactttattcatggttctctgggtaaatttgtgtatttactctaacaagagtttacttgtttggaactcag
upper sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G19870.3 (Glycine max), 5'ss of exon 1
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaa----acctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
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TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaag--ctgacttgaatttttctttcctgacattatactttctaattccttttctggccaataacatgtatgatgtt-ataacttacaagcagtctgttgcc------------------------------------------------------------------------
upper sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaa----acctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
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TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaag--ctgacttgaatttttctttcctgacattgtactttctttttccttttctggccaataatatgtatgacaat-ataacttataagcagtttgttgcc------------------------------------------------------------------------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|164109078|gb|EL976113.1|EL976113EST: AAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGT TCTAGTGGTAGTGGAAGTGAGAGCGGAACGCATCAAACTCAAAAG
genomic: AAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtcctt ... tcttgttcagTCTAGTGGTAGTGGAAGTGAGAGCGGAACGCATCAAACTCAAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaaacctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG