Sequence
atgc intronic sequence ATGC exonic sequencegtacgtttcttttcttatttccagaaggaatccattgctttattatgttgtccaatcaggaaagctaaaggcaattttgggctattccttcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G065105_T05 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g50120.2 (Oryza sativa), 3'ss of exon 7
gtacgtttcttttcttatttccagaaggaatccattgctttattatgttgtccaatcaggaaagctaaaggcaattttgggctattccttcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
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gcaggatttctttgttcttctcaaa---------ccagccaatcatgctgtgtaacctggatataccagagctaacttcggttatttcttattgaccagACAGAGCAAATGAGCAGAATTGTTAATGAGCTGGATTCCATTCATTTCTCCATTAAAAAGGCATCACAAATGGTGAAAGAAATTG---------------
upper sequence: GRMZM2G065105_T05 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g50120.1 (Oryza sativa), 3'ss of exon 7
gtacgtttcttttcttatttccagaaggaatccattgctttattatgttgtccaatcaggaaagctaaaggcaattttgggctattccttcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
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gcaggatttctttgttcttctcaaa---------ccagccaatcatgctgtgtaacctggatataccagagctaacttcggttatttcttattgaccagACAGAGCAAATGAGCAGAATTGTTAATGAGCTGGATTCCATTCATTTCTCCATTAAAAAGGCATCACAAATGGTGAAAGAAATTGGTAGGCAG-------
upper sequence: GRMZM2G065105_T05 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA17G15990.1 (Glycine max), 3'ss of exon 7
gtacgtttctttt-cttatttccagaaggaatccattgctttattatgttgtccaatcaggaaagctaaaggcaattttgggctattccttcttcatc-agACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
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gtatgaatcttaagcctagtcccaca-----ccccagaattaattgagaaaaaaagcttgagtttgccatgggaactaagggttcactcttctatgtctagACGGAACAAATGAGCAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATAAAGAAAGCCTCTAAATTGGTCAAGGAAATCGGTAGGCAG-------
upper sequence: GRMZM2G065105_T05 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G05720.2 (Glycine max), 3'ss of exon 4
gtacgtttctttt-cttatttccagaa---ggaatccattgctttattatgtt--gtccaatcaggaaagctaaaggcaattttgggctattccttcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
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gtatgaatcttatgcctagtcccacacctcagaatcaactgagaaaaaaagcttgaatttgccatgtgaactaagggta---------cactcttctatgtctagACAGAACAAATGAGTAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATGAAGAAAGCCTCTAAATTGGTCAAGGAAATTG---------------
upper sequence: GRMZM2G065105_T05 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G05720.1 (Glycine max), 3'ss of exon 4
gtacgtttctttt-cttatttccagaa---ggaatccattgctttattatgtt--gtccaatcaggaaagctaaaggcaattttgggctattccttcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
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gtatgaatcttatgcctagtcccacacctcagaatcaactgagaaaaaaagcttgaatttgccatgtgaactaagggta---------cactcttctatgtctagACAGAACAAATGAGTAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATGAAGAAAGCCTCTAAATTGGTCAAGGAAATTGGTAGGCAG-------
upper sequence: GRMZM2G065105_T05 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------------------gtacgtttcttttcttatttccagaaggaatccattgctttattat------gttgtcc--aatcaggaaagctaaaggcaattttgggctattccttcttcat---cagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
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gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaag--tgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG-------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|6194885|gb|AW146989.1|AW146989EST: AAGAAACCGTCAATGTGGGCACAGAAACTGCAGCTGCTCTGAAAGCACAG ACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCC
genomic: AAGAAACCGTCAATGTGGGCACAGAAACTGCAGCTGCTCTGAAAGCACAGgtacgtttct ... tcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttgtccaatcaggaaagctaaaggcaattttgggctattccttcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
agctaaa putative branch site (score: 3)
ctattccttcttcatc putative PPT
aatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtttcttttcttatttccagaaggaatccattgctttattatgttgtccaatcaggaaagctaaaggcaattttgggctattccttcttcatcagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA