Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g21160.1 (Oryza sativa), 5'ss of exon 3
---------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggccgccctacgtgcat-gcagt-------tgctccggggattgactgatttgct-gttctcgctccgcag-------------------------------
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TGAAGCTGATCTTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCCCGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTACAGgtacgttcgaaacgcggcttgaatgaagaaatgcatgcgcgattatgttaagcgctccaaattagtagtagtagtatactactacgttgcttgtcacgactgctagccaccaacctgcatgcatgtgaatttgttgttcgtcgctcctcag
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g21140.1 (Oryza sativa), 5'ss of exon 3
---------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaa-tggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgtt-ctcgctccgcag
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TGAAGCTGATCTTGGCCAAGGGCAATCCGCATTTCATCTGCGACGCCCGCGTGCTCGTCAAGCCTTACAAGGAGAAGGGCAAGGTCCCCGACAAGTACAGgcacgc-ttggaacacgctccggcgttttaattccgcatctttaaactgcaactgtatc-cgtgcatgcagttttcctggttgcttataattttttttccactcatcttgcag
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA12G01350.1 (Glycine max), 5'ss of exon 3
---------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggccgccctacgt-gcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
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TGAAGCTTATTCTATCTAAAGGAAACCCTCATTTTGTGTGTGATGCACGAGTGCTTGTTAAGCCTTACAAGGAGAAGGGCAAAGTCCCAGACAAGTACAGgcaccccct-ctttctactcttatgttaactttttgtttttgttattcccttgagtttgttttgaatgtgctcactattgtttcttg-tgatttgcag--------------
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G01780.1 (Glycine max), 5'ss of exon 3
---------------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggc-cgccctacgtgc-atgcagttgctccggggattgactgatttgctgttctcgctccgcag
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AGACAGTGAGACTCATATTATCCAAAGGGAATCCTCATTTTATCTGTGATTCACGTGTACTTGTCAAGCCCTACAAGGAGAAGGGAAAAGTCCCTGACAAgt--aagtatgcat--catgtttttaattggtttatatcttactattcctaaactaatgtgactaatttattatgcag-----------------------------------------
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA12G01350.2 (Glycine max), 5'ss of exon 3
---------------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggccgccctacgt-gcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
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AGACCGTGAAGCTTATTCTATCTAAAGGAAACCCTCATTTTGTGTGTGATGCACGAGTGCTTGTTAAGCCTTACAAGGAGAAGGGCAAAGTCCCAGACAAgtacaggcaccccct-ctttctactcttatgttaactttttgtttttgttattcccttgagtttgttttgaatgtgctcactattgtttcttg-tgatttgcag--------------
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G43700.1 (Glycine max), 5'ss of exon 3
---------------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
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AGACAGTGAGACTCATATTATCCAAAGGGAATCCTCATTTTATCTGTGATTCACGTGTACTTGTCAAGCCCTACAAGGAGAAGGGAAAAGTCCCTGACAAgt--aagtatgcatcatgttttaattggtttctgtatcttactattcctaa--actaatactat-tgtg-actaatttattatgcag------------------------------
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA12G01340.1 (Glycine max), 5'ss of exon 4
---------------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctccca-gcgaccgcaatggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
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AGACCGTGAAGCTTATTCTATCTAAAGGAAACCCTCATTTTGTGTGTGATGCACGAGTGCTTGTTAAGCCTTACAAGGAGAAGGGCAAAGTCCCAGACAAgtacaggcaccc-------------cctctttctactcttatgttatcttttttttgtttttgttattcccttgagtttgttttgaatgtgctcactattgtttcttgtgatttgcag
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G35990.1 (Glycine max), 5'ss of exon 7
---------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttg-------cttgctcccagcgaccgcaatggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
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TGAAGCTTATTCTATCCAAAGGAAATCCTCATTTTGTGTGTGATGCTCGAGTGCTTGTTAAGCCTTACAAGGAGAAGGGCAAAGTCCCAGACAAGTACAGgcacccaccccctctttctactcttatgttatcttttttttttcttttcttttttctttttggttattgtcttgagtttattttgaatgtcctcattgatgtttcttgtgatttgcag
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G35980.1 (Glycine max), 5'ss of exon 4
---------------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttg-------cttgctcccagcgaccgcaatggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
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AGACTGTGAAGCTTATTCTATCCAAAGGAAATCCTCATTTTGTGTGTGATGCTCGAGTGCTTGTTAAGCCTTACAAGGAGAAGGGCAAAGTCCCAGACAAgtacaggcacccaccccctctttctactcttatgttatcttttttttttcttttcttttttctttttggttattgtcttgagtttattttgaatgtcctcattgatgtttcttgtgatttgcag
upper sequence: GRMZM2G086614_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv13s0158g00370.t01 (Vitis vinifera), 5'ss of exon 4
---------------TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
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AGACAGTGAAGCTCATTTTGGCTAAAGGGAACCCTCATTTTGTTTGTGATGCTCGGGTTCTGGTTAAGCCCTATAAGGAGAAGGGCAAAGTCCCGGACAAgtacaggcactctcttct-gctctccctctaaatgcctt----ggtttttttggtg--catcttgcaga---gtagctgat--ggtaatttttggtttcag----------------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|149101000|gb|EE187097.2|EE187097EST: AAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGT----GCA-G---- GAAGCCGCAGCAAGGGGACTTCTCCGGCTGCACGACGCCCACTGGCGGGCT
genomic: AAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcat ... cgctccgcagGAAGCCGCAGCAAGGGGACTTCTCCGGCTGCACGACGCCCACTGGCGGGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGGCCAAGGGCAACCCGCACTTCATCTGCGACGCACGCGTGCTCGTCAAGCCCTACAAGGAGAAGGGCAAGGTCCCCGACAAGTGCAGGCATGCACTgcgagttcatcctttgcttgctcccagcgaccgcaatggcggccgccctacgtgcatgcagttgctccggggattgactgatttgctgttctcgctccgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA