Sequence
atgc intronic sequence ATGC exonic sequence...cctatttttggttcctacaaagcacaaagaaacttttagcaatttatctttttggcagaggcctcctatgaatttgctgacatgctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g21940.1 (Oryza sativa), 3'ss of exon 7
-------------------------------------------------------------------------------------cctatttttggttcctacaaagcacaaagaaacttttagcaatttatctttttggcagaggcctcctatgaatttgctgacatgctatgaact--tttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
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gtaaggccataggattgatgttttctcaaattgaacaacgaattaagttattaacacgattactgtactggtgcatgtggaaagcaacatcttcaagttcagcagctt-tatggggacatgcatatgttcttttttttagtttaaa-----tataaatttcaataattttcaaaaaccactttacagGAAAGCTTCATGATGCACGATGATGCGGTGCTTTCTGTTGATTTCAGTAGAGATTCTGAGATGCTGGCATCTGGATCACAGGATGGAAAGATTAAG
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G037683_T01 (Zea mays), 3'ss of exon 7
---------cctatttttggttcctacaaagcacaaagaaacttttagcaatttatctttt------tggc--agaggcctcctatgaatttgctgacatgct--atgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
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gtatgtgcctttaagttttgtagctttattataggacttaagtatgcacattctatttaatcagacatggctaaggtgctaattttttatgtactgtc-tgctggatgaacactt-cagGAAAGCTTTATGATGCACGAGGAACCTGTGCTGTGTGTTGATTTTAGTAGGGATTCTGAAATGCTGGCATCTGGATCACAGGATGGAAAGATTAAG
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 8
-------cctatt--tttggttcctacaaagcacaaagaaacttttagcaatttatctttttggcagaggcctcctatgaatttgctgacatgctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
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tatgctgtctaagaattttaatactattgatttaaaggaaatttcttatagtttatc-----aaaagtctttgccttagacatttctga--ttctatgaactt--gcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G13560.2 (Glycine max), 3'ss of exon 8
---cctatttttggttcctacaaagcacaaagaaact-tttagcaatttatctttttggcagaggcctcctatgaatttgctgacatgctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
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tgtatgaagttatgaacatatttgcttgatttatgctgtctaagaatttaaatattatcgatttatgccttagaaattttctga--ttctatgaactt--gcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G18000.1 (Glycine max), 3'ss of exon 2
cctatttttggttcctacaaagcacaaagaaacttttagcaattta-tctttttggcagaggcctcctatgaatttgctgacatgctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
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---gttatgaacatatttgcttcatttatgtagtctaagaatttaaatattatcaatttatgccttggacg--ttttctga--ttctatgaacttgta--gGAAGTGTTCATGATGTATGATGATGTTGTGCTTTGTGCAGACTTTAGCAGAGATTCAAAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 8
cctatttttggttcctacaaagcacaaagaaacttttagcaatttatctttttggcagaggcctcctatg--aatttgctgacatgctatg---aactttt-acagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
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-ccaagtatctcgtctgagacttcctggtatac-----aaaatatcagttttggataaagagttcccattccatcctctttacttactatgattaatttctgacagGAATCTTTCATGATGCATGATGATCCTGTCCTCTGCATAGACTTTAGCAGAGATTCAGAGATGCTTGCATCTGGGTCACAAGATGGAAAGATTAAA
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S136_176V6.1 (Physcomitrella patens), 3'ss of exon 8
-----cctatttttggttcctacaaagcacaaagaaacttttagca---atttatctttttggcagaggcctcctatgaatttgctgacatg----ctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
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gtaagctcaacttaaatattgggcatgtgcaacttcctgtgttgcataagtttgtgcgtttaacttcaatgctatgtggaatgaccattatgttcactctgca-tgttgcagGATACGTTCATGATGCACGATGAGGCAGTTTTATCCATCGCCTTCAGTAAGGATTCCGAGATGCTTGCTTCTGGATCTCAAGATGGAAAAATTAAGMapped 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|71862424|gb|DT011479.1|DT011479EST: GGGACCATATAAGTGGGAAACTTAAGAAGGATCTTCAGTATCAGGCTGAT GAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGA
genomic: GGGACCATATAAGTGGGAAACTTAAGAAGGATCTTCAGTATCAGGCTGATgtgagtggtt ... acttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGA
EST:
gi|30129597|gb|CB914936.1|CB914936EST: GGGACCATATAAGTGGGAAACTTAAGAAGGATCTTCAGTATCAGGCTGAT GAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGA
genomic: GGGACCATATAAGTGGGAAACTTAAGAAGGATCTTCAGTATCAGGCTGATgtgagtggtt ... acttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctttttggcagaggcctcctatgaatttgctgacatgctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
tgctgac putative branch site (score: 2)
cttttac putative PPT
tatgaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctatttttggttcctacaaagcacaaagaaacttttagcaatttatctttttggcagaggcctcctatgaatttgctgacatgctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - tggttcc
- - - - - - - - -caaagca
- - - - - - - - - - - - -aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgct