Sequence
atgc intronic sequence ATGC exonic sequencegtccacccttgttttaaacacagttgcttaaagttatactaatgtgaaatgagctccctatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g55360.1 (Oryza sativa), 3'ss of exon 9
gtccacccttgttttaaacacagttgcttaaagttatactaatgtgaaatgagctccc----tatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
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---------------gtaagcagtgcctcc---ttttgcttcctcgggattacttcttgaagtatggaaactgtactgtttttatttctgt-tgatcactcttttga--tgtggtagGATTTTGGAGACAGCATACCTGGGCATGGTGGGATTACTGACCGAATGGATTGTCAG
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os10g17990.1 (Oryza sativa), 3'ss of exon 9
gtccacccttgttttaaacacagttgcttaaagttatactaatgtgaaatgagctccctatctccacctcacaacaataaattaaaaataaggatttctctgaat-----ttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
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------------------------------------------------gtacgcatctattatcttttggaaaaaaaatatttcaatatcgaaatcttattcagtgtatacttttcagGATTTTGGTGATAGCATACCTGGCCATGGTGGATTTACTGACAGGATGGATTGTCAA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G452529_T02 (Zea mays), 3'ss of exon 9
gtccacccttgttttaaacacagttgcttaaagttatactaatgtgaaatgagc-tccctatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
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-------------------------------gtatacaccacttcgttgtttgcatcaataatattgttttactcaaattgat-----atatcttttttttacaaaaaatgtagGATTTTGGTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM5G825110_T01 (Zea mays), 3'ss of exon 9
gtccacccttgttttaaacacagttgcttaaagttatactaatgtgaaatgagc-tccctatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
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-------------------------------gtatacaccgcttcattgtttgcatcaataatattgtcttact----caaattgatatatcttcttttttacaaaaactgtagGATTTTGGTGACAGCATACCTGGGCATGGTGGAATTACTGATAGAATGGATTGCCAA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 7
gtccacccttgttttaaacac-agttgcttaaagttatactaatgtgaaatgagctccctatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
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gtatgttcttgctctttatactagacatttattttgcatccatcatcctttttccattcactttgaaactcccaaacatag--caatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G46440.1 (Glycine max), 3'ss of exon 9
gtccacccttgttttaaacacagttgcttaaagttatactaat-gtgaaatgagctccctatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
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gtctgttcttgctctttatacaagacatttattttgtacccatcaccctttttccattcactttgaaactcccaaacatagcatatag-catcgatctctttcaatgattacagGACTTTGGTGACAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAGMapped 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|110424073|gb|EC990426.1|EC990426EST: CCTTTGGTGGCTTTTTTGCTAGTGGTTTCAAGAGAGCTTTCAAAATCAAG GATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGAT
genomic: CCTTTGGTGGCTTTTTTGCTAGTGGTTTCAAGAGAGCTTTCAAAATCAAGgtccaccctt ... atttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
acctcac putative branch site (score: 3)
tttttac putative PPT
aataaattaaaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccacccttgttttaaacacagttgcttaaagttatactaatgtgaaatgagctccctatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA