Sequence
atgc intronic sequence ATGC exonic sequencegtgatgatatatatctgttttccaacttctagtcccatatatttctctcatgtaaacgtgggattctgaacagcattgctttctgtcgttaataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g21310.1 (Oryza sativa), 3'ss of exon 2
gtgatgatatatatctgttttccaacttctagtcccatatatttctctcatgtaaacgtgggattctgaacagcattgctttctgtcgt------taataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG
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--------atttctgaacatttgatacagtggtccaacagatttgttgtcgttgagcatataaactcagtttggtgtgttctttgccatgccatgccaaatttaacagATCAGGAAGAACAAGCTGATATACCAGGACAAGCCGAGGCTCAAGACCGCACTTGAGATGCTCAGGACCAGCATGTACGTAGAGGACAGCTTGTCCAAG
upper sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g29974.1 (Oryza sativa), 3'ss of exon 6
------------------------------------------------------------------gtgatgatatatatctgttttccaacttctagtcccatatatttctctcatgtaaacgtgggattctgaacagcattgct-ttctgtcgttaataat-gcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG
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gttcaaacgtttgagcaattcaccaatttgtattgtcagaatgcaagattcagacctaatcatgctgcgagatcttgtgtgttttgagcaaagaat-gtaggaaaaagagagagagagagagagagagattctgttttctgaaactgttttcttgtgaacaattgagcagATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCGCTGGAGCTGCTGCGAACCAGCATCAGCGTCGAGCAAAGCTTGTCACAG
upper sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g29974.2 (Oryza sativa), 3'ss of exon 6
------------------------------------------------------------------gtgatgatatatatctgttttccaacttctagtcccatatatttctctcatgtaaacgtgggattctgaacagcattgct-ttctgtcgttaataat-gcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAG---GACTCATTACATGAG
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gttcaaacgtttgagcaattcaccaatttgtattgtcagaatgcaagattcagacctaatcatgctgcgagatcttgtgtgttttgagcaaagaat-gtaggaaaaagagagagagagagagagagagattctgttttctgaaactgttttcttgtgaacaattgagcagATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCGCTGGAGCTGCTGCGAACCAGCATCAGCGTCGAGCAAAGCTTGTCACAGG--
upper sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G02160.1 (Glycine max), 3'ss of exon 6
gtgatgatatatatctgttttccaacttctagtcccatatatttctctcatgtaaacgtgggattctgaacagca-ttgctttctgtcgttaataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG
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atttccaaacttaacaattattgagg--ctaattgagaaaggaaatataatcttatttctatagtgcaagagttacttattgtcttctgataatgat-tgtagATAAGAAATAACAAATTGATATACCAAGACAAGCCCAGGCTAAAAACAGCAATGGAAATGATGAGAACTAGCATGAGTCTTGAAGAGAGTCTACATGAG
upper sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G37290.1 (Glycine max), 3'ss of exon 5
-----------gtgatgatatatatctgttttccaacttctagtcccatata-tttctctcatgtaaacgtgggattctgaacagcattgctttctgtcgttaataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG
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gtgaggtttatattgtaaattgtaattgagatgcttgcttaaatgacttaaagtcttgttgatttagtgctagggttaactaatgtgcctcttcctat-gagggtcat-tgcagATAAGGAAAAACAAGTTGATATACCAGGACAAGCCAAGGCTAAAAACAGCATTAGAAATGTTGAGAATCAGCATGAGCCTTGAAGACAGCTTATATAAG
upper sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G62860.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgatgatatatatctgttttccaacttctagtcccatatatttctctcat--gtaaacgtgggattctgaacagcattgctttc---tgtcgttaataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG-
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------------------------------------gtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCACTTGAAATGCTTAGAACGAGCATGGACCTTGAAGACACTCTCCACGAGAMapped 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|110423997|gb|EC990350.1|EC990350EST: CAAAGGATGTAATAGATTCTGCATTCAAGGACCCTGTTAAGAGAGAAGAG ATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCG
genomic: CAAAGGATGTAATAGATTCTGCATTCAAGGACCCTGTTAAGAGAGAAGAGgtgatgatat ... taatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgtaaacgtgggattctgaacagcattgctttctgtcgttaataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG
cgttaat putative branch site (score: 4)
ttaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgatatatatctgttttccaacttctagtcccatatatttctctcatgtaaacgtgggattctgaacagcattgctttctgtcgttaataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA