Sequence
atgc intronic sequence ATGC exonic sequenceCGGGCGGTCAAGGGGCTTTGGATTTGTCACTTTTGTGAGTGAAGATGCTGTTGAAAGGCTTTTCTCTGAGGGAAAAACTCATGAACTTGGAGGAAAACTGgtaaaagtctgattgaaatcaaattatcatgccgtttctatgtttttccacattgcagtgcttataacctgagaatttcaacataaaatattag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g02350.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G104481_T01 (Zea mays), 5'ss of exon 5
CGGGCGGTCAAGGGGCTTTGGATTTGTCACTTTTGTGAGTGAAGATGCTGTTGAAAGGCTTTTCTCTGAGGGAAAAACTCATGAACTTGGAGGAAAACTGgtaaaagtctgattgaaatcaaattatcatgccgtttctatgtttt-tccacattgcagtgcttata-acctgagaatttcaac-ataaaatattag------
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TGGACGTTCACGGGGCTTTGGATTTGTCACATTTGAAAGCGAGGATGCTGTTGAAAGGGTTATGTCAGAGGGGAGAATGCATGATCTTGGAGGGAAGCAGgtcacttctttatctc--tcattgtgttctgt-gttggtaaatatcattggcatgtaagcagttctgcagttgtcaggttcaattagcaaatggtctaacctg
upper sequence: Vv09s0002g02350.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G064518_T01 (Zea mays), 5'ss of exon 5
CGGGCGGTCAAGGGGCTTTGGATTTGTCACTTTTGTGAGTGAAGATGCTGTTGAAAGGCTTTTCTCTGAGGGAAAAACTCATGAACTTGGAGGAAAACTGgtaaaa-gtctgattgaaatcaaattatcatgccgtttctatgtttttccacattgcagtgcttataacctgagaatt--tcaacataaaatattag---
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TGGACGCTCACGTGGCTTTGGATTTGTCACATTTGAAAGCGAGGATGCTGTTGAAAGGGTTATGTCAGAGGGGAGAATGCATGATCTTGGAGGGAAACAGgtaacttgtttatcttttattgcgtttagtgatggtaaatatcattgtcatgtaagcagttctgcagttgtcaggttcaattagcaaatggtctgacttg
upper sequence: Vv09s0002g02350.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G167356_T01 (Zea mays), 5'ss of exon 6
CGGGCGGTCAAGGGGCTTTGGATTTGTCACTTTTGTGAGTGAAGATGCTGTTGAAAGGCTTTTCTCTGAGGGAAAAACTCATGAACTTGGAGGAAAACTGgtaaaagtctgattgaaatcaaattatcatgccgtttctatgtttttccacattgcagtgcttataacctga--gaatttcaacataaaatattag-------
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TGGGCGTTCTAGAGGGTTTGGTTTTGTCACTTTTGAAAGTGAAGATTCTGTTGAAAGAGTCATATCAGAGGGGAGAATGCGTGATCTTGGTGGGAAGCAGgttagatttttaatttttttggtgtaaacttatgtttc---acttactagtgaagtagaacaagaaagctaaatgaaatagacttagaaatgttcataacttt
upper sequence: Vv09s0002g02350.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA13G42480.1 (Glycine max), 5'ss of exon 5
CGGGCGGTCAAGGGGCTTTGGATTTGTCACTTTTGTGAGTGAAGATGCTGTTGAAAGGCTTTTCTCTGAGGGAAAAACTCATGAACTTGGAGGAAAAC----TGgtaaaagtct---gattgaaatcaaattatcat-----------------gccgtttctatgtttttccacattgc--agtgcttataacctgagaatttcaacataaaatattag-
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TGGGCGATCTAGAGGCTTTGGATTTGTCACTTTTGATGATGAAGATTCAGTTGAAAAGGTTTTTTCAGTGGGAAAAATACATGAAATTGGAGGCAAGCAGgttagtgaaactgttgaaattaaatttaaaatattcttattgtactgcacagaagctgatgctatttatttgtttattgtttattcttttcgatacccttgtctgactataaatcatttagMapped 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|349820267|gb|FQ399869.1|FQ399869EST: TTGAAAGGCTTTTCTCTGAGGGAAAAACTCCTGAACTTGGAGGAAAACTG GTGGAAATAAAGAAGGCTGAACCCAAAAGAGCTGGTGCCGAGTACAATGCT
genomic: TTGAAAGGCTTTTCTCTGAGGGAAAAACTCATGAACTTGGAGGAAAACTGgtaaaagtct ... aaaatattagGTGGAAATAAAGAAGGCTGAACCAAAAAGAGCTGGTGCCGAGTACAATGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGGGCGGTCAAGGGGCTTTGGATTTGTCACTTTTGTGAGTGAAGATGCTGTTGAAAGGCTTTTCTCTGAGGGAAAAACTCATGAACTTGGAGGAAAACTGgtaaaagtctgattgaaatcaaattatcatgccgtttctatgtttttccacattgcagtgcttataacctgagaatttcaacataaaatattag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA