Sequence
atgc intronic sequence ATGC exonic sequenceATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g02840.1 (Oryza sativa), 5'ss of exon 5
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattg-gtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagac-ccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
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ATCTTCGAGATGACAAGCAGTTTTTTGTGGACCATCCTGGTGCTGTTCCTATCACCACTGCTCAGgtacagttgtggcattgtgggttgtttaattccttatttactgtagcatcagagatgtacttgcaactcctgtggactacat----tgccatatcttgatcatttttttgttccttaattgccacttt-tgtag-------------------------
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA12G03660.1 (Glycine max), 5'ss of exon 5
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgta-tggtcattggtgattcactatcctgtttgctgctctagggagtaa----tacataaacgttt----gagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaaca---tggttaccttgccctcaccgccttatag--
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ATCTTCGGGATGATAAGCAGTTCTTTCAAGACCATCCTGGTGCAGTGCCTATCACCACAGCACAGgtgcttgctatttgccactacttcctttatatatacaattaattaattgcttttgcattattttttttttatttcactgttttttcttttagccctttttttgttggtcacagtatgggcatgagcttacttttgataggttagtggtctgatttactgtattttgtgaag
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G05160.1 (Glycine max), 5'ss of exon 5
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatg----gtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgt--cctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
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ACCTTCGAGATGATAAGCAGTTCTTCGTAGATCATCCTGGTGCCGTACCCATTACCACTGTTCAAgtaagtattattttttgtggacctctaattgcttatttgcttta--cacttcta-gtgcatgtttgtaatc----aatttttgttttttaatctaaaatttgctcatctttttgaag----------------------------------------------
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA16G23340.1 (Glycine max), 5'ss of exon 5
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
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ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtat--ttttttattttttatt-ttttgtgtgattctctagtt-gttttacatt-----------tctagtgcattcttgtaattaactt----tagtttttaatctaaaatttgcttatcttcttaaag---------------------------
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA11G11510.1 (Glycine max), 5'ss of exon 5
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgta-tggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacc-cggtgaattttgtcaactactctgtcctggttttcttcttgtccggtg-actgttg--tctaaca---tggttaccttgccctcaccgccttatag--
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ATCTTCGGGATGATAAGCAGTTCTTTCAAGACCATCCTGGTGCAGTGCCTATCACCACAGCACAGgtgcttgctatttgcaactacttcctttgaatatacaattaattgcttttgtgtcgtttttttatttcactgttttgacttttagcctttgtttgttggtcacactatgggcatgcatgatgttacttttgataggttagtgatctaatttaatgtattttgtgaag
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT4G35950.1 (Arabidopsis thaliana), 5'ss of exon 5
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattc---actatcctgtttgctgctctaggga-gtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
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ATCTTCGAGATGACAAACAGTTTTTCATCGACCATCCTGGTGCTGTCCCTATTACCACTGTTCAGgtaagaatacagttatttcctcagtgcaattttatcagctttaccaccgttaagcattttccctctctgcatggaag------------------------------------------------------------------------------------
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT3G51300.1 (Arabidopsis thaliana), 5'ss of exon 5
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattca--ctatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
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-------------------------------CCATCCTGGTGCTGTTCCGATTACTACTGCTCAGGGAGAGGAGCTGAGGAAGCAAATAGGAGCACCTACTTACATCGAATGCAGTTCCAAAACTCAAGAGgtacgtagattagtatatatacccttgttgcagatttctaatgttaatgttaatg----ctaatgttgatgatgtgagagtgcag--------
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
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ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaacagaatttttctttgaaatg-tgtcaatttacttagcctgt--tacttaaacg-----aacccttttaacc--gttcaccactttg----ggcatcaaag----------------------------------------------------
upper sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 5'ss of exon 6
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
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ATCTTCGGGAAGACAAGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaat--atgatgtgtca--aacattatcacagatttaatccttaatttgca----tttagaattttttgcaaaataatattt--tctttttttgttttatttatttgtatttattcatgtttcatccaag------------------------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|211356952|gb|FL222516.1|FL222516EST: CAGTTCTTTGTGGACCATCCTGGTGCTGTTCCCNTATCACTACTGCTCAG GGAGAGGAGCTA
genomic: CAGTTCTTTGTGGACCATCCTGGTGCTGTTCC--TATCACTACTGCTCAGgtatggtcat ... cgccttatagGGAGAGGAGCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag
- - - - - - - - - - - - - - - - - - - - GCTGTT