Sequence
atgc intronic sequence ATGC exonic sequence...tataggctgtatctagtaaaacaattaatgctttaccttttatttgttaccttcattcttccaaagctcagagtcaagtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os12g40550.1 (Oryza sativa), 3'ss of exon 8
-tataggctgtatctagtaaaacaattaatgctttaccttttatttgttaccttcattcttccaaagctcagagtcaa--gtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
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atttatgaagctagtaggtggtcaagcagaatttcaagaa--aatggtcaaagatatatttgcagcgataatgtttttccataatgaattattct-tcttcagGTATTCTGCAGCTACATCCAGGAGCAATCAATAGCATCCCAAGTAAATCGCATGTGGAAATTG
upper sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G130034_T01 (Zea mays), 3'ss of exon 8
tataggctgtatctagtaaaacaattaatgctttaccttttatttgttaccttcattcttccaaagctcagagtcaagtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
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tactaggacagtaggacttgggacctgctatgttgacataggtggagtttgtcaagatatgattacctcggattaatttgattaaactattcctcttcagGTATTCTGCAGTTACATCCAGGAGCAATCAATAGCATCCCAAGCAAATCACACCTAGAAATTG
upper sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G34790.1 (Glycine max), 3'ss of exon 8
tataggctgtatctagtaaaacaattaatgctttaccttttatttgttaccttcattcttccaaagctcagagtcaagtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
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---------------------------gtaagttattattgaagtgt---ctcgattaatctagaactttcgtttaaactaacctcttttattttacaagGTATCCTGGAACTGCATCCTGGAGCAATCAACAGCATCCCCAGCAAATCTCACCTAGAAATTG
upper sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G32850.2 (Glycine max), 3'ss of exon 7
tataggctgtatctagtaaaacaattaatgctttaccttttatttgttaccttcattcttccaaagctcagagtcaagtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
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---------------------------gtaggttattattgaagtg---cctcgattaatctagaacttccatttaagctaacctcttttattttacaagGTATCCTGGAACTGCATCCTGGAGCAATCAACAGCATCCCCAGCAAATCTCACCTAGAAATTG
upper sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G43600.1 (Arabidopsis thaliana), 3'ss of exon 8
tataggctgtatctagtaaaacaattaatgctttaccttttatttgttaccttcattcttccaaagctcagagtcaagtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
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--------------------gtaagttttgcctcactaatttctaaagaactt-actct-caatagaacgtattcacagaatgaatcattgtggtttaagGTATTCTGGAGCTACATCCTGGGGCAATCAACAGCATTCCAAGCAAATCCCATCTTGAAATCGMapped 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|110377763|gb|EC942850.1|EC942850EST: TGAGAAACATGTGTTAGAATCTGGATCTATTGATACTGTTGGTACTGTGG GTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCAC
genomic: TGAGAAACATGTGTTAGAATCTGGATCTATTGATACTGTTGGTACTGTGGgtgagtcatg ... gtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCAC
EST:
gi|110369681|gb|EC933846.1|EC933846EST: TGAGAAACATGTGTTAGAATCTGGATCTATTGATACTGTTGGTACTGTGG GTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCAC
genomic: TGAGAAACATGTGTTAGAATCTGGATCTATTGATACTGTTGGTACTGTGGgtgagtcatg ... gtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaccttcattcttccaaagctcagagtcaagtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
tccctgtctcccc CT-rich tract
tgataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataggctgtatctagtaaaacaattaatgctttaccttttatttgttaccttcattcttccaaagctcagagtcaagtgataaatccctgtctccccagGTATTCTGGAGCTGCATCCTGGAGCAATCAACAGCATTCCAAGCAAATCACATCTAGAAATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - -aaaacaa