Sequence
atgc intronic sequence ATGC exonic sequencegtttgatttttggcagttggcttcttagatttttcttgcttggcaatggcttatttccttacatctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g01890.1 (Oryza sativa), 3'ss of exon 9
-----------------------------------gtttgatttttggcagttggc--ttcttagatttttcttgcttggcaatggcttatttccttacatctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
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gtatttttcacacttttgtacagttgaaccatgttttttgtcctttgatgtaggaccatttttgtatcctgtcaaactaataata--caatttggtttaatcttt-cagGCATGGAGTGTTCCTGAGGTGCTTCGGCCACTCTATGAATCTTCAAGGGTAGTCGCTCAGAAAATGACTACTGCG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G109987_T01 (Zea mays), 3'ss of exon 9
------------------gtttgatttttggcagttggcttc--ttagatt-tttcttgcttggcaatgg-cttatttccttacatctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
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gtctggttctcactttttattttaattttaatgttttgatgctgttagtctgtatgttgtccattaatgatcgtattgggtttcatcttt-cagGCATGGAGTGTTCCTGAAGTGCTTCGACCACTGTATGAGTCTTCTAGAGTTGTTGCTCAGAAAATGACTACTGTG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G042250_T03 (Zea mays), 3'ss of exon 9
------------------gtttgatttttggcagttggcttc-ttag-atttttcttgcttggcaatggct-tatttccttacatctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
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gtctggtttccattttgtcttttgttttaaccttttgatgccattagtatgtatgttgtccattaatgattgtattgggtttcatcttt-cagGCATGGAGTGTTCCTGAAGTGCTTCGACCACTATATGAGTCTTCTAGAGTAGTTGCTCAGAAAATGACTACTGTG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G08080.1 (Glycine max), 3'ss of exon 8
-gtttgatttttggcagttggcttct-tagatttttcttgc-----ttggcaatggcttatttccttacatctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
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gttttgtttcttaacactgagctaatgcatatttttcctttccttatttacattaatttgcttattgttttcttt-tagGCATGGAGTGTGCCAGAAGTGTTGCGGCCACTTTATGAATCATCCAAGGTGGTTGCTCAGAAAATGACAATTGCA
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G20520.1 (Glycine max), 3'ss of exon 8
-gtttgatttttggcagttggcttct---tagatttttcttgcttggcaatggcttatttccttaca---tctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
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gttttgtttcgtaacactgagctaatgtatatttttttcttttcttatatacattaatttgcttattgttttcttttagGCATGGAGTGTGCCAGAAGTGTTGCGGCCACTTTATGAATCATCCAAGGTGGTTGCTCAGAAAATGACAATTGCAMapped 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|161721412|gb|FC070776.1|FC070776EST: GTGAGGGTGGAGGATCGATCATCCATATTGTTGACCACCTGAATCTTGAG GCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTT
genomic: GTGAGGGTGGAGGATCGATCATCCATATTGTTGACCACCTGAATCTTGAGgtttgatttt ... atctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggcttcttagatttttcttgcttggcaatggcttatttccttacatctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
tccttac putative branch site (score: 2)
tttccttacatcttt CT-rich tract
ttagattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgatttttggcagttggcttcttagatttttcttgcttggcaatggcttatttccttacatctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA