Sequence
atgc intronic sequence ATGC exonic sequencegtatggttctcttttattcacattccaacttttgtgccttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 9
gtatggttctcttttattcacattccaacttttgtgccttttaaatatgttgttgta-aggcctttattgtttgcaatg-ttccttttcaattgata--ccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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-----------------gtaaattcaaaa----gcccttctagaattaattttagagtgggcacactttgcttatgatgattactgttatctttatattctagATTGTCCTGGAAGCCGATGGTTATCAACCATATTTGATATCTCCAGAGAAAGGTTTAAAATCCTTAATAAAAGGAGTACTTGAAATGGCAAAGGAGCCAT
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 3'ss of exon 9
gtatggttctctt-ttattcacattccaacttttgtgccttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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--gtaattcggttattcttgaagcttctgttacttgactcatcaattgtatggttataat-caatagatattccttttg--cctttttcttttgtgccagATTGTTCTTGAGGCTGATGGTTACCAACCATACCTGATATCACCTGAAAAAGGTTTAAGATCTCTTATAAAAGGTCTTCTAGAATTAGCAAAGGAACCAT
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 3'ss of exon 9
gtatggttctcttttattcacattccaacttttgtgc--cttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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-----gtaagattggatcca-gtttcaggattagtgctactatcaggcattttcccatcttttatgaacactgaacagtattctctgacatt-----ctagATTGTCTTGGAAGCCGATGGTTATCAACCGTACCTGATATCTCCAGAGAAAGGGTTGAGGTCCTTGATAAAGATAGTATTGGATATGGCAAAGGAGCCAT
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 9
gtatggttctcttttattcacattccaacttttgtgccttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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-----------gtatgatcac-ttccaatttta----cattgagctctggt-tggcagttagcacatgattaaacacatttctctccacacaata---gATTGTCTTGGAAGCAGATGGTTATCAACCATATTTGATATCTCCAGAGAAAGGGTTGAGATCCTTAATAAAAATAGTACTGGAAATGGCAAAGGAGCCAT
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 9
gtatgg-ttctctttt--attcacattccaacttttgtgccttttaaat-atgttgttgta---aggcctttattgtttgcaatgttccttttcaatt--gataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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gtaaatcttctcccttgaatttgtcatattgtttaggtagaatatagttcatcttattctgttgacacttggggtgcttgct-tctatattctcattttggctttcagATTGTCCTAGAAGCAGATGGATATCAACCTTATCTGATCTCTCCAGAGAAAGGTTTGAGATCCTTAATTAAAGGCGTTCTTGAACTGGCGAAGGAGCCAT
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 9
gtatgg-ttctctttt--attcacattccaacttttgtgcctttta----aatatgttgttgtaaggcctttattgtttgc---aatgttcct-tttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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gtaaaccttctcccttgaatttgtcatattgtttaggtagaatttagttcattttattctcttgacacttgaggtgcttgcttctatattcccattttggcttatttcagATTGTCCTTGAAGCAGATGGATATCAACCTTATCTTATCTCTCCAGAGAAAGGTTTGAGATCCTTAATTAAAGGCGTTCTTGAACTGGCAAAGGAGCCAT
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatggttctcttttattcacattccaacttttgtgccttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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--gtgggtgtcttcttct---gtcctaagtttc-tgcacg--agacaagtttt----gagacttgatttgtcaaaatatc---tttgattt----tcagGTTGTTTTGGAGGCAGATGGTTATCAACCTTATCTTATATCTCCAGAGAAAGGGTTGAGATCGTTGATAAAGATTGTCCTTGAGTTGGCTAAAGACCCGG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatggttctcttttattcacattccaacttttgtgccttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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gtgggtttctgaatt-ttcctgcctcaaattgtataa-----acaagtaacggctttagac---tggagtgtgacagattgattttccaattgtttcagATCGTGTTGGAGGCTGATGGTTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S426_19V6.1 (Physcomitrella patens), 3'ss of exon 9
gtatggttctcttttattcacattccaacttttgtgcctttt--aaatatgttgttgtaa--ggcctttattgtttg---caatgttccttt--tcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
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gtatggcgcacaaagaatttcgggaacacatttgtatttgtgtgaaacagtttattatggacgagcagaatggactgacttattacccctttgtcttattggtgc-agTTGGTACTTGAAGCAGATGGTTATCAACCATACCTTTTGTCACCTGAAAAAGGTTTAAGAGCACTCATTAAAAAGGCGCTAGAATTGGCCAAAGAACCAGMapped 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|30298644|gb|CB975438.1|CB975438EST: TCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAAGA ATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAGA
genomic: TCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAAGAgtatggttct ... ttgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
aattgat putative branch site (score: 4)
tttattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggttctcttttattcacattccaacttttgtgccttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccagATTGTGCTAGAAGCAGATGGTTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT