Sequence
atgc intronic sequence ATGC exonic sequence...aattgctctatttgagttacaaatgaagattgttgtttggaggcttgcccgaaatacgaccgtttttctgaattaccattttctgttatttttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 3
--------------------------------------------------------------------------------------------aattgctctatttgagttacaaatgaagattgttgtttggaggcttgcccgaaatacgaccgtttttctgaatt--accattttctgttatttttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
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gtaagataatcaagttaatcactgactcatttatagtcttgattttttttttcaaattgtatgtgccttttcgattatttatagaaattataaattactttcagcatgatgctcaacatgccagat-tttgtgctccaactaaatttattaatgcattaataaggtgaatcagaacatgttcttattttt-cagATTCAAGCAGCCTTTAGAACTGATGAGATCCGAAGAACCCAGCCAACTCCTCAAGATGAAATGAGGGCTGGTATGAGTTACTTTCATGAGACAATCTGGA
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 5
--------------------aattgctctatttgagttacaa-------atgaagattgtt------gtttg-gaggcttgcccgaaat-acgaccgtttttctgaattaccattttctgttatttttcc-----tgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
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gtgatttcctttttgtaggagcttggattatgagtggcacaagaccactatagtgattatttcaacaatcagcaagatttgtcatacatcaaaaatatatttatatgattctaattccttatattttttcttatgttcagATCCAAGCCGCCTTTAGAACAGATGAAATTCGGCGAGCACCTCCTACACCACAGGATGAAATGCGTGCTGGAATGAGTTATTTTCATGAGACAATATGGA
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 3
aattgctctatttgagttacaaatgaagattgttgtttggaggcttgcccgaaatacgaccgtttttctgaattaccattttctgttattt---ttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
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gatttttttattt---ttataccttggaataattcttctgcaaagtgaaaaatacatggtatttttctaaacttatttatttatcttgcttgtgttcatgtagATCCAAGCTGCATTTCGTACTGATGAAATCAGGAGGACCCCTCCAACCCCACAAGATGAGATGAGAGCAGGGATGAGTTACTTCCATGAAACAATTTGGA
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 4
aattgctctatttgagttacaaatgaagattgttgtttggaggcttgcccgaaatacgaccgtttttctgaattaccattttctgttatttttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
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ttctgctgaagaagaaatgtttaagggtgaaaagaaacaaaggctcaattgagtcaacgacattgttaacaattttcttttgttgcttttgtctatgtagATTCAAGCTGCCTTCCGTACAGATGAAATCAGGAGGACCCCTCCAACACCACAAGATGAGATGAGAGCAGGGATGAGCTACTTCCATGAAACAATTTGGA
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 3
---------aattgctctatttgagttacaaatgaagattgttgtttggaggcttgcccgaaatacgaccgtttttctgaattaccattttctgttatttttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
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ttctgcagaagaaaaattgttcaagtgtgaaaagaa-accaatgcac--aattttgtc---aatggaatcgttaac---aattttcttttgttgcttttttatatgtagATTCAAGCTGCCTTCCGTACAGATGAAATCAGGAGGACCCCTCCAACACCACAAGATGAGATGAGAGCAGGGATGAGCTACTTCCATGAAACAATTTGGA
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 4
aattgctctatttgagttacaaatgaagattgttgtttggaggcttgcccgaaatacgaccgtttttctgaa-----ttaccattttctgttatttttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
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-ttttctatcataccaatgcctttagaaattgct-tctgcaaagtaa---aaaatacatggtattttctaaacatatttatttatttttacttttgttcatgtagATCCAAGCTGCATTCCGTACTGATGAAATCAGGAGGACCCCTCCAACCCCACAAGATGAGATGAGAGCAGGGATGAGCTACTTCCATGAAACAATTTGGAMapped 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|352763749|gb|FQ473452.1|FQ473452EST: AGCAGGAACTTGATGAGGCTCTACAGAGAGAG ATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCA
genomic: AGCAGGAACTTGATGAGGCTCTACAGAGAGAGgtaaatattt ... tttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcccgaaatacgaccgtttttctgaattaccattttctgttatttttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
ccattttctgttattt CT-rich tract
attttctgttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattgctctatttgagttacaaatgaagattgttgtttggaggcttgcccgaaatacgaccgtttttctgaattaccattttctgttatttttcctgcagATTCAAGCAGCATTTCGCACAGATGAGATCCGGAGGACCCCTCCTACTCCACAAGATGAGATGAGGGCAGGAATGAGTTATTTCCATGAAACAATCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - aaatgaa
- - - - - - - - - - - - - - - - -tgtttgg
- - - - - - - - - - - - - - - - - - - - - -cttgccc
- - - - - - - - - - - - - - - - - - - - - - - - - gaaatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatttt