Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagcttggtaaaatcacatctattctaggtgtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os07g14850.1 (Oryza sativa), 3'ss of exon 8
gtatgtagcttggtaaaatcacatctattctaggtgtcctgataaagat---gtctgaattttattt--cctggtgggcttattctttaa-----aacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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gtaaa-agatccttcacataatgtctcgtatcaatttccatgtagatttacagccttagcaccgtttgacatggttttctctctctttgttgtttgacagGTCCGCGTCTCTGCTGTTCTTTCGAATGCTCCATACCTATTGAACTTGGATTGTGATCACTACATCAACAATAGCAAGGCCATAAGGGAAGCGATGTGTT
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g62090.1 (Oryza sativa), 3'ss of exon 9
--gtatgtagcttggtaaaatcac--atctattctaggtgtcctgataaagatgtc---tgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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gtaaagacaacacgttcaaggcatttgtcagtcttctatagcctg-tagcagcatccagtggatattgatgtcctttctgtttgtctgttttt-cagGTCCGAGTCTCCGCTGTACTAACTAATGCTCCATATATGTTGAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 9
-----------------gtatgtagcttggtaaaatcacatctattctaggtgtcctgataaag-at-gtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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gtaaaagataatttctttgatgtttttttggctttccataacctgtactcctgtattaacaaaatatagtgtatgtttaatttttttgc---tttgttgattca--cagGTCCGAGTATCTGCTGTACTAACTAATGCTCCATACATGCTCAACTTGGATTGTGATCATTACATCAACAATAGCAAGGCTATAAAGGAAGCAATGTGTT
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G025231_T02 (Zea mays), 3'ss of exon 9
gta--tgtagcttggtaaaatcac------atctattctaggtgtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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gtaattgttacatctttgaatcatttgtttgtctgtcttctataacctatgggatacaataggtttttaattacttttg---tttgtttgtatcacagGTCCGAGTCTCTGCTGTACTAACAAATGCTCCATATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G028353_T02 (Zea mays), 3'ss of exon 9
gta--tgtagcttggtaaaatcacatctattctaggtgtcctgataaagatgtc------tgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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gtaattatggcatctttgaatcatttgt-ttgtatgtcttctatagcctatgtggtacaatgtgttttatttacttctg---tttgtctgtatcacagGTCCGAGTCTCTGCTGTACTATCAAATGCTCCTTATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAAGCTATAAAGGAAGCAATGTGTT
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G113137_T01 (Zea mays), 3'ss of exon 9
gtatgtagcttggtaaaatcacatctattc-taggtgtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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------------gtaaatatattttggttgatgcattttctgtcactatagcctgtagatggttttcctc---attttggcttttccacagGTCCGAGTCTCTGCTGTACTAACTAATGCTCCTTATTTGCTGAACTTGGATTGTGATCACTATATCAATAATAGTAAGGCTATAAAGGAAGCAATGTGTT
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G177631_T01 (Zea mays), 3'ss of exon 7
-------gtatgtagcttggtaaaatcacatctattctaggtgtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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gtaaaatctgtgcactttatgtcttttacaattcttcttg-taacctaatagcagtgcatgactgatgctttgttgttttgtgttcataattgatagGTCCGTGTCTCTGCTGTCTTATCAAATGCTGCATACCTATTGAACTTGGACTGTGATCACTACATCAACAATAGCAAGGCCATAAAAGAGGCTATGTGTT
upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G082580_T01 (Zea mays), 3'ss of exon 7
-----gtatgta-gcttggtaaaatcacatctattctaggtgtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaa---acagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
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gtaaaatctctgcacttgatgtcttttatcattcttcttgtaacctaataacagtgtgtgattgatgctttgttgttcttttgtgttcataattggtagGTCCGTGTCTCTGCTGTCTTATCAAATGCTCCATACCTATTGAACTTGGACTGCGATCACTACATCAACAATAGCAAGGCCATAAAAGAGGCTATGTGTTMapped 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|161708357|gb|FC055293.1|FC055293EST: AGAGACCTGGATTTAATCACCACAAGAAGGCTGGTGCCATGAATGCTCTG GTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGAT
genomic: AGAGACCTGGATTTAATCACCACAAGAAGGCTGGTGCCATGAATGCTCTGgtatgtagct ... tttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGAT
EST:
gi|294965928|gb|GW839267.1|GW839267EST: CACCACAAGAAGGCTGGTGCCATGAATGCTCTG GTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGAT
genomic: CACCACAAGAAGGCTGGTGCCATGAATGCTCTGgtatgtagct ... tttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
tcctgat putative branch site (score: 3)
cttattcttt putative PPT
ttattctttaaaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtagcttggtaaaatcacatctattctaggtgtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG