Sequence
atgc intronic sequence ATGC exonic sequence...ggtgttctaggggacagtccgataaaatgcgcttgctgaagtcactgtagcacttatgttatagtctaatgtttccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 2
--ggtgttctaggggacagtccgataaaatgcgcttgctgaagtcactgtagcacttatgttatagtctaatgtttccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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tcaatgtcttacatctgcttcatttttggtaaaacttccaatgtttcattcatgttgatgg-agaatatcttatgtgttatct-tattattttactatacagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTATTCCTCAGAGGTCAAGAAAACTGAGGTGCTAATGGAGAATTTCCGTAGAGCTATAGGTTTGCGTA
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g62040.3 (Oryza sativa), 3'ss of exon 2
ggtgttctaggggacagtccgataaaatgcgcttgctgaagtcactgtagcacttatgttatagtctaatgttt----ccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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---ttatgagttttttgtttgatgccctacatctacttcagttttggtaaaagttccaatgta-tctaatggttgatatgttgtcttgttatttcataacacagGTCCCCTTCTGTCCTATGGTGGGATCAGAAGTGTATTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTCGAGCTATAGGCTTGCGTA
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 2
ggtgttctaggggacagtccgataaa-atgcgcttgctgaagtcactgtagcacttatgttatagtctaatgtttccttcctctatcactatacaa---tgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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-gtttccctctcaagactctcattctcgtggtgttttttttttctctgt-gttttgattgtgacccttcttgctgctgataataatgtttatgccactctgcagGTTCCTTTCTGCCCAATGGTTGGTTCTGAAGTTTACTCCTCAGAAGTAAAGAAGACCGAGGTTCTCATGGAAAATTTTAGACGGGCCATTGGTCTGCGTA
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 2
ggtgttctaggggacagtccgataaaatgcgcttgctgaagtcactgtagcacttatgttatagtctaatgtttccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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-gtttctttctcaagactctcattctttgtgtt-------gtgattgttacccct-tcttgctgcttataattaagttt-------attccactctgcagGTACCGTTCTGCCCTATGGTTGGCTCCGAAGTTTACTCCTCGGAAGTAAAGAAGACTGAGGTTCTCATGGAAAATTTTCGACGGGCCATTGGTCTGCGTA
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------------------------------------ggtgttctaggggacagtccgataaaatgcg---cttgctg-aagtcactgtagcacttatgttatagtctaatgtttccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttt-tacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTAMapped 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|211207933|gb|FK975839.1|FK975839EST: CGGGCAAGACGGCGCTAGCGCTCGGCATAGCCCAGGAGCTCGGCAGCAAG GTCCCTTTCTGCCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAG
genomic: CGGGCAAGACGGCGCTAGCGCTCGGCATAGCCCAGGAGCTCGGCAGCAAGgtccgtgcgt ... tacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtagcacttatgttatagtctaatgtttccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
gtctaat putative branch site (score: 3)
ttatgttata TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtgttctaggggacagtccgataaaatgcgcttgctgaagtcactgtagcacttatgttatagtctaatgtttccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT