Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttgaacttggtagttccaaagatttgtattttgtttgtcattctagtattttacattactgaacatgaccaaccatgatttgacacctcaatgaccacctgctgttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g58240.1 (Oryza sativa), 3'ss of exon 2
gtaagtttgaacttggtagttccaaagatttgtattttgtttgtcattctagtattttacattactgaacatgaccaaccatgatttgacacctcaatgaccacctgctgttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
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gtaagtttgaacttagta-tttggaagagctttactttgactgaagcac-aatattaaggtatgctgg---tgaataaaattgattttgtttctcaacg-----------------tagGTCATTGGTCCATATCGATCTGGAAAGTCTTTTCTCCTCAACCAGCTTCTCTCTTTATCATGTGAAAAAG
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT2G38840.1 (Arabidopsis thaliana), 3'ss of exon 2
----------gtaa-gtttgaac--ttggtagttccaaagatttgtattttgtttg----tcattctagtattttacattactga--acatgaccaaccatgatttgacacctcaatgaccacctgctgttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
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gtatgtgacagtgatgtttgactcattatcaattcttcgtatgttctttctatctgaacctggttttctcggaccaagatatttgttactttgtttctcacgatttgcttgttatttcctttggtgttgaaatactagGTGATTGGCCCATATCGTTCTGGAAAATCATTTCTACTCAATCAGCTTCTTTCTCTTTCTTGTTATGAAG
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0141g00110.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtttgaacttggtagttccaaaga-tttgtattttgtttgtcattctagtattttacattactgaacatgaccaaccatgatttgacacctcaatgaccacctgctgttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
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-----tttgg--ttcctagttggggatactttgtgaataatttgtc--tttagatatttgtttttctttttttctctgtttttgatt--------caatg-ttgattgttgtc--ttcagGTAATTGGTCCATACCGCTCTGGAAAATCTTTTTTGCTCAATCAACTTCTCTCCCTTTCTTGTTATGAAG
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S100_89V6.1 (Physcomitrella patens), 3'ss of exon 2
-----------------------------------------------------------gtaagttt--gaacttggtagttccaaagatttgtattttg----tttgtcattctagtattttacattactgaa--catgaccaaccatgatttgacacctca-atgacc---acctgctgttaacc----cagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
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gtgcgtgtggaatcaaaaccatttgttgtctttactttctcctgccttccctcctttaaacaatctctgagatgtgatgatcctgcaaagctgttttacaaggctttgaaatcctcctgtgttactgttttaaggtcccaattgcatggcagttagcattgtacataacacgaacgagttttaaacttttgcagGTCATCGGACCTTATCGTTCTGGAAAATCATTTCTCCTCAATCAGCTTCTGTCACTTTCCTGCAATGAAG
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ35720 (Selaginella moellendorffii), 3'ss of exon 2
gtaagtttgaacttggtagttccaaagatttgtattttgtttgtcattctagtattttacattactgaacatgaccaaccatgatt-tgacacctcaatgaccacctgctgttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
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-------------------------------------------------gtgcgtagtgcgtgagcaagcacga--atctatgctcgttatggatctctttttctttgctgtca-cgcagGTCATAGGTCCCTATCGATCGGGAAAATCATTTCTTCTAAACCAGCTTCTATCTCTCACTTGCAATGAAGMapped 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|31361636|gb|CD445993.1|CD445993EST: AGCAATTCGAAGGATTGAAACTCCTATTGCTGTTGTTGGT GTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTC
genomic: AGCAATTCGAAGGATTGAAACTCCTATTGCTGTTGTTGGTgtaagtttga ... gttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaacatgaccaaccatgatttgacacctcaatgaccacctgctgttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
tgttaac putative branch site (score: 2)
atgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttgaacttggtagttccaaagatttgtattttgtttgtcattctagtattttacattactgaacatgaccaaccatgatttgacacctcaatgaccacctgctgttaacccagGTCATTGGTCCATATCGATCTGGAAAATCTTTTCTCCTCAACCAGCTTCTCTCCTTATCTTGTGATAAAG
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