Sequence
atgc intronic sequence ATGC exonic sequenceGTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatccttattatatttatcaacttcttggtgatattatgcataagtagctaacatactttgcgtataatacaatctctgtaactgatcaatcagggcgaattatttcatattgtgcatacctatttctgatctggatgctattttggttttccttaactatatttctcttcaag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G158162_T03 (Zea mays), 5'ss of exon 4
GTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatcctta-----------------ttatatttatcaacttcttggtgatattatgcataagtagctaacatactttgcgtataatacaatctctgtaactgatcaatcagggcgaattatt-tcatattgtgcatacctattt-------ctgatctggatgctattttggttttccttaactatatttctcttcaag
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GTGTTGCTAGGCCACCTGCTGAAGGAAGGGGCCGCAATCAATTACTTCCTCGGTATTGGCCAAGAATAACAGACCAAGAGCTGCAACAAATATCTGGAGAgtatccttgataaggtctccatacatttgaaactgtgaacttcctggtgacattgatctcagacatttag--taacttatacatca---aggctctagaatagctcattaggcttaaacccttataatatgatgcataaatttcttgtgtaacagatatagtttttctttta-tcttccttgactatattt---tgcaag
upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G172621_T01 (Zea mays), 5'ss of exon 4
GTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatcctta-----------------ttatatttatcaacttcttggtgatattatgcataagtagctaacatactttgcgtataatacaatctctgtaactgatcaatcagggcgaat-tatttcatattgtgcatac-ctatttctgatctggatgctattttggtttt-----ccttaactatatttctcttcaag
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GTGTTGCTAGACCACCTGCTGATGGAAGGGGACGCAATCAATTACTTCCTCGTTATTGGCCAAGAATAACAGACCAAGAGCTGCAACAGATATCTGGAGAgtatccttgataaggctttcatgcatttgaaattgtcaacttcctggtgacattgatctttgacatttagtaccttataaatacaagg----ctccagaagagctcattaggcttaagcctgtataatatgctgcataaattctttttgtaacagatgcaggttttgttttatcttccttgactatattt---tggaag
upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA18G05840.1 (Glycine max), 5'ss of exon 6
GTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatccttattatatttatcaacttcttggtgatattatgcataagtagctaacatactttgcgtataatacaatctctgtaactgatcaatcagggcgaattatttcatattgtgcatacctatttctgatctggatgctattttggttttccttaactatatttctcttcaag
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GTGTTGCTCGGCCACCTGCAGATGGCAGGGGCAAGAATCAGTTACTTCCTCGATACTGGCCGAGGATTACTGATGAAGAGCTAGAGCGATTGGCTGGAGAgtatcctt--tatatttttta----tttggttgtcttgaacatatata----atagactctg---atagtataaagttggt---ttattcagtagtttcccttaatgtatgatag------------------------------------------------------------
upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv08s0058g01300.t01 (Vitis vinifera), 5'ss of exon 5
GTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatcctt-attatatttatcaacttcttggtgatattatgcataagtagctaacatactttgcgtataatacaatctctgtaactga-tcaatcagggcgaattatttcatattgtgcatacctatttctgatctggatgctattttggttttccttaactatatttctcttcaag
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GTGTTGCAAGGCCACCTGCAGAGGGACGGGGTCGGAATCAGTTGCTTCCTCGTTATTGGCCGAGGATCACAGACCAGGAATTGCAGCAAATATCTGGAGAgtatccttgactatgtc-atttttattttgaagttcatagat-tgcttcgctgttaatttttttttaattttcatgcttattcaccaactcgatcag--cgatttctttaat------catgctttcttgaag--------------------------------------------
upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv06s0004g08100.t01 (Vitis vinifera), 5'ss of exon 4
GTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatcctta----ttatatttatcaacttcttggtgatattatgcataagtagctaacat-actttgcgtataatacaatctctgtaactgatcaatcagggcgaattatttcatattgtgcatac-ctatttctgatctggatgctattttggttttccttaactatatttctcttcaag
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GCATTGCAAGGCCACCTGCTGAGGGGAGGGGACGGAATCAGTTACTTCCTCGATACTGGCCAAGGATTACCGACCAGGAACTGCAGCAATTATCTGGAGAgtatccataaatatttcatactttaatttttaagttg-attat-catcataatagaatgtgattttatgtaacattcaatgtgt-tggtttgttcattgattcaattaagtgtttaccttacatatgttatcttcaag-------------------------------------------
upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S31_242V6.1 (Physcomitrella patens), 5'ss of exon 5
GTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAAT---TTCTGGAGAgtatccttattatatttatcaacttc--ttggtgatattatgcataa--gtagctaacatactttgcgtataat-acaatctctgtaactgatcaatcagggcgaattatttcatattgtgcatacctatttctgatctggatgctattttggttttccttaactatatttctcttcaag
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---TAGCGCGGCCACCTGGAGAGGGAAGGGGTCGCAACCAGTTGCTACCTCGTTATTGGCCTCGAATAACAGACCAGGAGCTGAAGCAGATCAATTCTGGAGAgtatcctttctaagtttgtttattcaaatttgtgtaaataggggttacgggattcagtgagtttcgagtatcattacaatctaatcttcagttttcacttgacaatgcattacag-----------------------------------------------------------------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|58671720|gb|CK060406.1|CK060406EST: CGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGA TTCAAATTCCACCATTGTCCCCCTGTTTGAGAAGGTTCTAAGCGCCAGTGA
genomic: CGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatccttat ... tctcttcaagTTCAAATTCCACCATTGTCCCCCTGTTTGAGAAGGTTCTAAGCGCCAGTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGTTGCAAGGCCACCTGCAGAAGGTAGGGGCCGCAATCAATTACTTCCTCGATATTGGCCTAGAATAACAGACCAAGAGCTACAGCAAATTTCTGGAGAgtatccttattatatttatcaacttcttggtgatattatgcataagtagctaacatactttgcgtataatacaatctctgtaactgatcaatcagggcgaattatttcatattgtgcatacctatttctgatctggatgctattttggttttccttaactatatttctcttcaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA