Sequence
atgc intronic sequence ATGC exonic sequence...tatgggattaggtttgaggcagtagcttaatttgatgctctaaatttatttgttatgtaatcaatgtgcatcactcactttgtgaatttttattttccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 3'ss of exon 9
-----tatgggattaggtttgaggcagtagctt-aatttgatgctctaaatttatttgttatgtaatcaatgtgcatcactcactttgtgaatttttattttccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
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ttgcctattgagttttgcctta--cagtggctttaatattgtagtatat-tttacaactaattatgttactgtat-tcattgaacatatgaacca--attttacagGTTTAAGTGTATTGACCTTGATGGAAATGGCATTTTAACCACCACTGAAATGCAATTTTTCTATGAGGAGCAATTGCACCGGATGGAGTGCATGGCACAA
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G148323_T01 (Zea mays), 3'ss of exon 9
tatgggatta-ggtttgaggcagtagcttaa-tttgatgctctaaatttatttgttatgtaatcaatgtgcatcactcactttgtgaatttttattttc-cagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
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---gttgttgtgatctattaccttattctatctttgctatacacattgtatatctcaggttacagttgtatttttattgaaatatgggaaacaactttcgcagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTTCAATGAAATGCAATTTTTCTACGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAA
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: PP1S191_94V6.1 (Physcomitrella patens), 3'ss of exon 10
----------------------------------------------------tatgggattaggtttgaggcagtagctt---------aatttgatgctctaaatttatttgttatg-ta-atcaatgtgcatcactcactttgtgaatttttatttt----ccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
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gtaatttttttgtttttttcttattctttttaattttatttattaatttatttattttattatctcccatgtagttatttctttttacaagcttgaattcttaaacatgatcattgtgatatatctatatttaatgattatctaacaagtggtgaaaataaaattagGTTCAAGTGTGTGGATTTAGATTGTGATGGGGTGATCACTGCAAATGAAATGCATTATTTTTATGAGGAGCAATTACATCGAATGGAATGTATGGCACAA
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ20642 (Selaginella moellendorffii), 3'ss of exon 9
tatgggattaggtttgaggcagtagcttaatttgatgctctaaatttatttgttatgtaatcaatgtgcatcactcactttgtgaatttttattttccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
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----------------------------------------gtaagcgacgtcttgaatcttctgtaag-atcgatcgattgacagatcgcgactt-ccagGTTCAAATGTATCGATCTGGATTGTGACGGAGTGGTGACTCCAAACGAGATGCAGTACTTTTACGAGGAGCAATTGCATCGCATGGAGTGCCTAGCTCAA
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ32791 (Selaginella moellendorffii), 3'ss of exon 9
tatgggattaggtttgaggcagtagcttaatttgatgctctaaatttatttgttatgtaatcaatgtgcatcactcactttgtgaatttttattttccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
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----------------------------------------gtaagcgacgtcttgaatcttctgtaag-atcgatcgattgacagatcgcgactt-ccagGTTCAAATGTATCGATCTGGATTGTGACGGAGTGGTGACTCCAAACGAGATGCAGTACTTTTATGAGGAGCAATTGCATCGCATGGAGTGCCTAGCTCAAMapped 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|161708749|gb|FC060060.1|FC060060EST: TTC-TGCTGTCAGAGGAGGATAAGTCATCAGAGCCTGGTCTTGAATATTG GTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAAT
genomic: TTCATGCTGTCAGAGGAGGATAAGTCATCAGAGCCTGGTCTTGAATATTGgtataccttg ... tattttccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttgttatgtaatcaatgtgcatcactcactttgtgaatttttattttccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
cactcac putative branch site (score: 2)
tttttattttcc putative PPT
tttgtgaatttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgggattaggtttgaggcagtagcttaatttgatgctctaaatttatttgttatgtaatcaatgtgcatcactcactttgtgaatttttattttccagGTTCAAGTGCATAGATTTGGATGGAAATGGAGTGCTTACACTGAATGAAATGCAGTTCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - tgatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtg