Sequence
atgc intronic sequence ATGC exonic sequence...attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaagttctacaactaacatgcaattgttttttccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g51690.1 (Oryza sativa), 3'ss of exon 3
attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaagttctacaactaacatgcaattgtttt--ttccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
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gtttgtttagtcaacattctgttatttctattgcccttctaacttatctgagtgagctctgaagtgtcttctgtatttttctttgttcaaattattttccagCCACAATCAAAGAATGGTGTCAATAGCTTTGGTGGTCTCGGGGCAACTCTTGTGGACTCACTTGATACACTGTATATAATGGGCCTAAAGGATGAATTTC
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 3
-attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaagttctacaactaacatg-caattgtttttt---ccttaa----cagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
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gtttgtttagtcggtagtaattctgat-ctgcagttgtttttgcatttcttaactgattctaaatttaaaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G130889_T02 (Zea mays), 3'ss of exon 3
attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaa---gttctacaactaacatgc--------aattgtttt-------ttccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
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---gtttgtttagtcggtactctgtattaattctgatctgcatctggttttacatttcctaactgattctagatctaaactgccttctgtcatttgctttgctcgcgttgattcccagCCACAATCGAAGAATGGTATCAACAGCTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACCCTATACATAATGGGCCTGAAAGATGAATTTC
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 3
attcctagatttgtggcatttgtatttcc--atagtgtttatgatgttgtttcattttatccaagttctacaactaaca--tgcaattgttttttccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
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atgataaaaattg----gtttgtttttcgtaaaaataattattttatttgttctttaaatttacattttttaaaaattaattgttatctttttggtgctaccagCCACAATCAAAGAATGGTGTCAATAGCTTTGGAGGTCTTGGAGCAACTTTAATAGATTCTCTTGATACACTATATATTATGGGTCTCAACGAACAGTTTC
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 2
attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaagttct---acaactaacatgcaattgtttttt--ccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
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-----taaaatattggtttctttctcgtaaaaataattattttatttgttctttaaatttacattttttaaaaattaatcgttattttttttttggtgctaccagCCACAATCAAAGAATGGTGTCAATAGCTTTGGAGGTCTTGGAGCAACTTTAATAGATTCTCTTGATACGCTATATATTATGGGTCTCAATGAACAGTTTC
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 3
--------attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaagttctacaactaacatgcaattgttttttccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
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caaagattttgttaagaactaagattattttcttcctgaactctgcaaaaaaaatattggtctgaagctattcttgtttctt--------tcctttttttattgtcagCCTCGGACAAAAGATGGCACTGATAGCTTTGGTGGCCTTGGAGCAACTATGGTAGATTCTTTAGATACACTCTATATAATGGGTCTAGATGAGCAGTTTCMapped 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|27583590|gb|CB006285.1|CB006285EST: ATGCATGGAGTTCATATGAGAAGTATGCGTGGGGACAAGATGAACTTCAG CCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTA
genomic: ATGCATGGAGTTCATATGAGAAGTATGCGTGGGGACAAGATGAACTTCAGgtttcattga ... tccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttcattttatccaagttctacaactaacatgcaattgttttttccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
aactaac putative branch site (score: 1)
ttgttttttcctt putative PPT
aattgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaagttctacaactaacatgcaattgttttttccttaacagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - -gcatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaagtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctacaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgca