Sequence
atgc intronic sequence ATGC exonic sequencegtaagctaacgtggatgaaagttttatttggcactgcccttttttttttttcatgattcatacctacttgtgctgtgatgattgtaattttattcacacttgtaaacagagattcggttataattgtatataaaatcaattggttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAGACTTTAGCTGAAGTTAAAGTGCGCATACAGAAGAAATTACAGGTTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 28
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 24
gtaagctaacgtggatgaaagttttatttggcactgcccttttttttttttcatgattcatacctacttgtgctgtgatgattgtaattttattcacacttgtaaacagagattcggttataattgtatataaaatcaattggtt-ccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAGACTTTAGCTGAAGTTAAAGTGCGCATACAGAAGAAATTACAGGTTCCTG
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------------------------------gtagtgcacttcgatatgatct-tcattcttgtctaattgagttgt----attgggagttggct---acttacaaa-----atatgctgaacattccattaatactgctgtgatgactagcagCAGATTCAGAACTTTGGAGATCCTTTTTATCTTGCTATCCGTGAAGGTGAGACTTTAGCAGAAGTAAAGGAGCGCATACAGAAAAAACTCCAAGTCCCTG
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 28
lower sequence: GRMZM2G418232_T02 (Zea mays), 3'ss of exon 7
gtaagctaacgtggatgaaagttttatttggcactgcccttttttttttttcatgattcatacctacttgtgctgtgatgattgtaattttattcacacttgtaaacagagattcggttataattgtatataaaatcaattggttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAGACTTTAGCTGAAGTTAAAGTGCGCATACAGAAGAAATTACAGGTTCCTG
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---------------------------------------------------------------------gtagtgcaattattgagttatatttgaagatagctattcgatatttttgtgtgtcaagaattgacattgtttttgacctacagCAGATTCAGAACTTTGGAGACCCTTTCGTTTTGGTCGTTCATGAAGGTGAGACTTTAGCAGAAGTCAAGAAGCGCATACAGAGTAAACTGCAAGTCTCTG
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 28
lower sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 7
gtaagctaacgtggatgaaagttttatttggcactgcccttttttttttttcatgattcatacctacttgtgctgtgatgattgtaattttattcacacttgtaaacagagattcggttataattgtatataaaatcaattggttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAGACTTTAGCTGAAGTTAAAGTGCGCATACAGAAGAAATTACAGGTTCCTG---
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---------------------------------------------------------------------gtagtgcaattattgagttatatttgaagatagctattcgatatttttgtgtgtcaagaattgacattgtttttgacctacagcagATTCAGAACTTTGGAGACCCTTTCGTTTTGGTCGTTCATGAAGGTGAGACTTTAGCAGAAGTCAAGAAGCGCATACAGAGTAAACTGCAAGTCTCTGCTG
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 28
lower sequence: GLYMA10G23680.1 (Glycine max), 3'ss of exon 24
gtaagctaacgtggatgaaagttttatttggcactgcccttttttttttttcatgattcatacctacttgtgctgtgatgattgtaattttattcacacttgtaaacagagattcggttataattgtatataaaatcaattggttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAGACTTTAGCTGAAGTTAAAGTGCGCATACAGAAGAAATTACAGGTTCCTG
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----------------------gtgctttgctactaaatctgtcttgatataataatatttttcttct----ctctaa-aattactaccttaatttttcttaacatttgcactttcttttcttttgtgtttatgttct-ttgaaaacaacagCAAGTTCAGAATTTTGGACATCCTTTTTTATTGGTTATCCGTGAGGGTGAGACATTGGCTGAAGTCAAATTGCGAATACAGAAAAAGTTGCAAGTTCCAGMapped 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|110710415|gb|EE086729.1|EE086729EST: GGTTGATTCATGTTTATCATTTTATGAAAGACACAACTCAG-A--A--T- CAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAG
genomic: GGTTGATTCATGTTTATCATTTTATGAAAGACACAACTCAGAATCAGGTGgtaagctaac ... gttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAG
EST:
gi|351033616|gb|FQ447775.1|FQ447775EST: GGTTGATTCATGTTTATCATTTTATGAAAGACACAACTCAGAATCAGGTG CAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAG
genomic: GGTTGATTCATGTTTATCATTTTATGAAAGACACAACTCAGAATCAGGTGgtaagctaac ... gttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgtaaacagagattcggttataattgtatataaaatcaattggttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAGACTTTAGCTGAAGTTAAAGTGCGCATACAGAAGAAATTACAGGTTCCTG
ttataattgtatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctaacgtggatgaaagttttatttggcactgcccttttttttttttcatgattcatacctacttgtgctgtgatgattgtaattttattcacacttgtaaacagagattcggttataattgtatataaaatcaattggttccaacagCAGGTTCAGAATTTTGGAGAACCCTTTTTCTTGGTCATCCATGAGGGTGAGACTTTAGCTGAAGTTAAAGTGCGCATACAGAAGAAATTACAGGTTCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA