Sequence
atgc intronic sequence ATGC exonic sequencegtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatcttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G180418_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g55630.1 (Oryza sativa), 3'ss of exon 3
gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatcttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
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------------------------------------------------------------------------------ttgtccacaattgaaatcctcagagattcatttttcaaagctactcattaattatttaa-ttatatgaaattttcacacttgtatt--gtcttaactttccagGTTTAGCAAATCCAGCACCCATTATACAGACTTTCTATGCAGAAGATACAGTTTTTAATGATGTCAAGCTGGATGGTGTTGTGACTTTAGTAGATGCAAA
upper sequence: GRMZM2G180418_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA20G38450.1 (Glycine max), 3'ss of exon 3
gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatcttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
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-------------------------------------------------------------------gtaactggcagagtttattcttgt--ttaatataagatttggtagacctccttgttagttgttatggtcgtgcttagta-tgactgacttgttcccatgtttgtactttgacagGTTTGGCAAATCCAGCACCAATAATCCAGACCTTTTATGCAGAGGAAAACATTTTTAATGAAGTCAAATTGGATGGTGTTGTTACTCTGGTTGACGCAAA
upper sequence: GRMZM2G180418_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatc-ttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
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---------------------------------------------------------------------------------------------gttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttca--ctttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA
upper sequence: GRMZM2G180418_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT1G15730.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatcttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
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-----------------------------------------------------------gttcaatattttctatcactctggagctacatgattcgttaagaacc-aacta-ctatgttattaaagaat-aaatgaat-atattatgtatatt------------------ttctttcagGATTGGCTAACCCTGCTCCGATTATTCAAACTTTCTATGCTGAGGATGAAATTTTCAATGATGTCAAGCTGGATGGGGTTGTCACTCTGGTTGATGCTAA
upper sequence: GRMZM2G180418_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatcttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
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-----------------------------------------------------------gtatatacacttcctttacagatatgta----gcatttcgactagctaaat-gtgttggatttctctgggtt-------ttatattcatgaatcttgtttgc----------aacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAAMapped 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|74243279|gb|DT651193.1|DT651193EST: GGTGAACAAGAAGAAGGGGAGGTTTGATCATATTGTTATTGAAACCACAG GTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAG
genomic: GGTGAACAAGAAGAAGGGGAGGTTTGATCATATTGTTATTGAAACCACAGgtaaagagct ... attttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAG
EST:
gi|211350103|gb|FL241788.1|FL241788EST: GGTGAACAAGAAGAAGGGGAGGTTTGATCATATTGTTATTGAAACCACAG GTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAG
genomic: GGTGAACAAGAAGAAGGGGAGGTTTGATCATATTGTTATTGAAACCACAGgtaaagagct ... attttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
tgttaac putative branch site (score: 2)
ctgctctccttttttc CT-rich tract
ataaatcatgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatcttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA