Sequence
atgc intronic sequence ATGC exonic sequencegtaatttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgttttataacaagcatctacttgagtatttaccaacatttcaaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 3'ss of exon 7
-------------------------------------------------------------------------gtaatttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgtt---------ttata-acaagcatctacttgagtatttaccaacatttcaaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
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gtatgatgcaatcgatcatattgctcgtactccattgtgctaacatgtccattacaacctgaggcttgaaaaagccattactttggttgt--ttccgtactttctagatcta-taatttgtccaggaaatagtcttcatgctggaatgcattaacatacaaacagcagtcttagaattttctgtgtcttca---tgcagGAAGAAATTATTAGAATGTGCAGGAGCATGGGAAAAGCTGTTATTGTTGCCACTAATATGCTAGAAAGTATGATTGTTCATCCAACTCCAACCCGAGCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G152686_T01 (Zea mays), 3'ss of exon 7
gtaatttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgttttataacaagcatctacttgagtatttaccaacatttcaaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
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----------agtgcttactataagctgtcagtaaagaaatatt-ttttcctttgccgatgaaggtgtttcagatttacatcttccttgaatatt-----atgttctttcctgcagGAAGAAATTATTAGAATGTGCAGGAGCATGGGGAAGGCTGTTATTGTTGCTACAAATATGCTCGAAAGTATGATTGTTCATCCAACTCCAACCCGAGCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G37210.1 (Glycine max), 3'ss of exon 7
gtaatttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgttttataacaagcatctacttgagtatttaccaacatttcaaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
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gtaaagtcctt---ttaaac---agaaatgagattaatggtaaagataattatcagttggtat--tgcttcgtaaca------taaaaaaatgcttgctaa----------tgtagGAAGAGATAATAAGCATATGCCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCAGAGCCG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G30430.1 (Glycine max), 3'ss of exon 7
gtaatttctttgtttctgattga-agagatgatagagataatagggtcttccagaagtgcctttcatgttttataac-aagcatctacttgagtatttaccaacatttcaa--------actgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
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-------gtatggtccttttaaacagaaatgagattaatggtaaagataagtattagttggtattac-ttccataactggatatcaatttgagttctttttaagatcacaatgcctgctagtgtagGAAGAAATAATCACCATATGTCGTAGCATGGGAAAGGCCGTTATTGTGGCAACAAATATGCTGGAAAGCATGATTGTTCACCCGACACCAACCAGAGCCG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G28980.1 (Glycine max), 3'ss of exon 7
gtaa-tttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgttttataacaagcatctacttgagtatttaccaacatttcaa--------actgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
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gtaaacttctttacctctga--aaatctgtagtaaaaataatta-----tcaattggtatcatttatgttgctggatggatgtcatgttgagctcatcttaacatcgtaatggctgttattgtagGAAGAGATAATCAACTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 7
gtaatttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgttttataacaagcatctacttgagtatttaccaacatttcaa--------actgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
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gtaaactcctt--tacctcttaaatccatagtaaagataatta-----tcaattggtatcatttatgccactggaaggatgtcattttgagctcatcttaacatcgtaatgcttgttattgtagGAAGAGATAATCAATTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgttttataacaagcatctacttgagtatttaccaacatttcaaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
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gttagtactt-gcctctcatttttaagataacccagagaaggagattt------agaacttgttgaagttga----aactcttgatttta--atttgtta-----------tacagGAGGAGATCATTAACCTGTGCCGTAGTATGGGAAAAGCTGTTATTGTTGCGACTAACATGCTTGAGAGTATGATAGTTCATCCAACTCCAACCCGGGCAGMapped 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|110698146|gb|EE075377.1|EE075377EST: GAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG GAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCA
genomic: GAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAGgtaatttctt ... caaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatgttttataacaagcatctacttgagtatttaccaacatttcaaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
ttataac putative branch site (score: 2)
ttttataacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttctttgtttctgattgaagagatgatagagataatagggtcttccagaagtgcctttcatgttttataacaagcatctacttgagtatttaccaacatttcaaactgcagGAAGAGATAATCAGGATATGTCGTAGCATGGGAAAAGCTGTTATTGTAGCAACCAATATGCTGGAAAGCATGATTGTTCACCCAACACCAACCCGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG