Sequence
atgc intronic sequence ATGC exonic sequence...ttccacacctgctctgctctttaataagtgaggaatttcacttcgtgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 1
------ttccacacctgctctgctctttaataagtgaggaatttcacttcgtgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
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tatccatttcttagatgaaggatttcttcaatgctagacaagtacaaat-gcacaattg---gttgcttctttgtgtgttgatctt-tatgctgttttgttt-cagTTGACATCATCTCTGCAATTGAGTTTGATAAATCTGGTGATCATCTTGCCACCGGAGACAGAGGAGGACGTGTTGTTTTATTTGAAAGGACAGATGCTCG
upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 1
-----ttccacacctgctctgctctttaataagtgaggaatttcac--ttcgtgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
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gcaaaagaggaatttcgtcggtgcttttgtatctgaattagtttgtggttcaagataatgt-gaaagtttccttat-tattggccttattgtcttccta-----cagTGGACATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAA
upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 1
ttccacacctgctctgctctttaataagtg-aggaatttcacttcgtgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
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tgtgaagcctgccagtatgagtgattgacataattggattagctattgttgctgttaatgtgtaagtttcctaattattta-cccaattttatttcttcagTGGATATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGTGGTGGTCGAGTAGTTCTCTTTGAGCGGACAGATACAAA
upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 1
ttccacacctgctctgctctttaataagtgagg-aatttcacttcgtgtgagtgtag--aatgt-cgccttgcatgttgatttaacactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
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---tgtggagtcttccagtattagtgattgacataattatattagctattgttgcagttaatgtgtaagtttcctaattattta-cccaattttatttcttcagTGGATATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAA
upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 1
ttccacacctgctctgctctttaataagtgaggaatttcacttcgtgtgagtgtagaatgtcgccttgcatgttgattta--acactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
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-cgttaagatgaattagtgtgtcatta-tgacgtgtagcttagcaggtgtattttgtttggcgcattgtgtttttggtaaccatacccctcatgttttgcagTTGACATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAG
upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 1
ttccacacctgctctgctctttaataagtga--ggaatttcacttcgtgtgagtgtagaat-gtcgccttgcatgttgatttaacactcttct---ttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
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------gctgactttgttaggtcataattgttcgcatttttctcacaggttaaaattgagttattttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
--ttccacacctgctctgctctttaataagtgaggaatttcacttcgtgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgtttt-cagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
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actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctgcg-agattcctattttctttgct--tctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAAMapped 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|148947897|gb|EC893391.2|EC893391EST: GGTCACAGATAGTTGTCTTTATTTTGTGTTTTAAAGAATGCAGAAAGGTG TTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCA
genomic: GGTCACAGATAGTTGTCTTTATTTTGTGTTTTAAAGAATGCAGAAAGGTGgtaagaagct ... ttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
atttaac putative branch site (score: 3)
cactcttctttgtttt CT-rich tract
ttgatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttccacacctgctctgctctttaataagtgaggaatttcacttcgtgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG