Sequence
atgc intronic sequence ATGC exonic sequence...cccctttttttaccagtacttattttatactatttatggggtatgttcttaagtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 3'ss of exon 7
-cccctttttttaccagtacttattttatactatttatggggtatgttctta-agtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
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gttgaaatggttgagaaaacg-attgtgaaatggtta-aatataaattatgataaagataagaaaactcctggttcttatgtctgttctcatatggtcttagAAAAACCACTGGAGGGACTGCACATAGTCGTGGATGCAGGGAATGGAGCAGGTGGCTTTTTTGTG
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G069676_T03 (Zea mays), 3'ss of exon 7
cccctttttttaccagtacttattttatactatttatggggtatgttcttaagtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
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tgaaatgattgaatgtcaaacatatgacacaacttataggctttagaaaagaagcaaatgaaataacttatgatggttatgttttttttctttggcctagAAAAACCATTGGAGGAACTGCATATAGTCGTTGATGCAGGGAATGGTGCTGGTGGTTTTTTTGTG
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 6
-cccctttttttaccagtacttatt-ttatactatttatggggtatgttcttaagtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
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tttttatttttttgtagaatttatagttcttccctttactgttgat-ttcctgaatgtttttagcttgtttgctaacttttattg-cattatttatccacagAGAAACCATTGGGGGGTTTCCATATAGTTGTTGATGCAGGCAATGGAGCAGGAGGCTTTTTTGCT
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 6
-cccctttttttaccagtacttatt-ttatactatttatggggtatgttcttaagtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
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ttttttattttttgtataatttatagttcttccctttactgttgat-ttcctgaatgtttttatcttgtttgctaacctttattg-cattaattatccacagAGAAACCATTGGAGGGTTTCCATATAGTTGTTGATGCAGGCAATGGAGCAGGAGGCTTTTTTGCA
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G35490.1 (Glycine max), 3'ss of exon 8
cccctttttttaccagtacttattttatactatttatggggtatgttcttaagtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
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---------------------------------------gttgatttcctgaatgtttttatcttgtttgctaacctttattg-cattaattatccacagagaaaccattggagggtttccatatagTTGTTGATGCAGGCAATGGAGCAGGAGGCTTTTTTGCA
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 3'ss of exon 7
----------------cccctttttttaccagtacttattttatactatttatggggtatgttcttaagtggtctgat-ccagtttgctaatttcact---tggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
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gtattactcctttgagatatttcttttttcaggaatcttagcataatcaagaaagttctgaacttctatttatctgctgctaatatatcgagcttaatgtatggcgtttctgattcttagAGAAGCCTCTAGAGGGATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCTMapped 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|71862630|gb|DT011685.1|DT011685EST: TTATACATCTTACCTTGTAGAGGCAGTTCGTAGAGCTGCAGGAAATATAG AGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAG
genomic: TTATACGTCTTACCTTGTAGAGGCAGTTCGTAGAGCTGCAGGAAATATAGgtaatattgc ... ttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAG
EST:
gi|71862924|gb|DT011979.1|DT011979EST: TTATACATCTTACCTTGTAGAGGCAGTTCGTAGAGCTGCAGGAAATATAG AGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAG
genomic: TTATACGTCTTACCTTGTAGAGGCAGTTCGTAGAGCTGCAGGAAATATAGgtaatattgc ... ttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttaagtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
tgctaat putative branch site (score: 2)
tttattctc putative PPT
ttggtattatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cccctttttttaccagtacttattttatactatttatggggtatgttcttaagtggtctgatccagtttgctaatttcacttggtattatttattctcagAGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
ccccttt
- - - - - - - - - - - - - - - - - - - -ggtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatcc