Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaattaacttacctaaattctatatggtgcataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 4
gtaagtaattaacttacctaaattctatatggtgcataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
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gtaagtggtcgagtgat---aattaagcata-tacttagatcaatagtc---aattggttaataaact------gctctgct---gcagAGAGTGCAAGGGCTGCTCTAAATTTGTCGGGAACCGTGCTTGGATATTATCCTGTCAGGGTGCTGCCATCAAAAACTGCGATTGCACCTGTTAACCCAAC
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 3
gtaa-gtaatta-acttacctaaattctatatggtgcataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
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gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccttgttc--cagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAAC
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G132286_T01 (Zea mays), 3'ss of exon 3
gtaa-gtaatta-acttacctaaattctatatggtgcataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
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gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccatgttc--cagAGGGTGCAAGGGCTGCTCTAAATCTGTCAGGAACTATGCTCGGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTGCCATTGCACCAGTCAATCCAAC
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G069102_T01 (Zea mays), 3'ss of exon 4
gtaagtaattaacttacctaaattctatatggtgcataattcacaggttt--ttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
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gtaatatatccatatcccaccatgtttcagtttgcttactctatgtaatggatctactgtttatcgggtgaaaaacatc--gatgtcccagAGGGTGCAAGAGCTGCTCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAAGGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G161649_T01 (Zea mays), 3'ss of exon 2
gtaa-gtaatta-acttacctaaattctatatggtgcataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
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gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaccatccatgttc--cagAGGGTGCAAGGGCTGCTCTGAATCTATCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTACCATTGCACCAGTCAATCCAAC
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G036634_T01 (Zea mays), 3'ss of exon 13
gtaa-gtaatta-acttacctaaattctatatggtgcataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
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gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccatgttc--cagAGGGTGCAAGGGTTGCTCTGAATCTGTCAGGAACTGTGCTCAGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTGCCATTGCACCAGTCAATCCAACMapped 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|34416313|gb|CF415067.1|CF415067EST: TGACCCTAACTCAGTTCTGCGTTTTGCTTTTGTTGAGTTTACTGATGAAG AAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACC
genomic: TGACCCTAACTCAGTTCTGCGTTTTGCTTTTGTTGAGTTTACTGATGAAGgtaagtaatt ... ggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
atttgac putative branch site (score: 4)
ttgtttattt 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 |
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gtaagtaattaacttacctaaattctatatggtgcataattcacaggtttttggttgtttatttgactctgggtattttggttatgcagAAGGTGCACGGGCTGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC