Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G114126_T01 (Zea mays), 3'ss of exon 3
----gtatgtgccatctagttt-gtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
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cttcctattctttactgagccccatacagaaaataacttctcttttatctttcatgtgatgattcatgctaatgcttttacctgttcctgctgaatgcagTTGATGGAATACTGTGAGTTGTTAGACAAAGCAGATGAATGTGAGGATCCATACATGCGTATGGTTTATGCTT
upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 3
---gtatgtgccat-ctagtttgtataagtttgatg-tttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
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tattcttattctgtactgagtcccatacataaaataacttctctctatatttaatgtgatgattcatgctaatgtttttacctgttcctgctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCATACATGTGTATGGTTTATGCTT
upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G174644_T02 (Zea mays), 3'ss of exon 3
---gtatgtgccat-ctagtttgtataagtttgatg-tttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT---------------------------
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tattcttattctgtactgagtcccatacataaaataacttctctctatatttaatgtgatgattcatgctaatgtttttacctgttcctgctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCATACATGTGTATGGTTTATGCTTGTAAGTTTTCTGCTTCCCTTCCCTTGC
upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G04210.1 (Glycine max), 3'ss of exon 3
gtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctc--tagcctgtttcaaatgttg--caaattgtgaat-gcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
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gtttgcacagctctattttattttttgtgttttctgctttgttaaattgctttatttgtttgtattggcacttgattgagctttgaattgttcgaactagTTGATGGAGTACTCCTACCTGTTAGATCAGGCAGATGAATGTGAGGACCCATACATGCGGCTGGTGTATGCAT
upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G06690.1 (Glycine max), 3'ss of exon 3
gtatg-tgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
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gtcggcttactcttagttttgccattgttgatgat-accttaatctgtagtgtcaa--ttgattgaatt--tgaaaattgaaattgcttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCGGTTAGTTTATGCAA
upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G14770.1 (Glycine max), 3'ss of exon 3
gtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcct----gtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
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--------------gtatgc-taacttttagttttgccattgttgatgatacctgaatttgtagtgtcaattgattgaatttgaaattgcttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCAGTTAGTTTATGCAAMapped 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|30133371|gb|CB918710.1|CB918710EST: TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAA TTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT
genomic: TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgcca ... cttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT
EST:
gi|30252454|gb|CB970005.1|CB970005EST: TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAA TTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT
genomic: TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgcca ... cttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
tttcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT