Sequence
atgc intronic sequence ATGC exonic sequencegtaagataagaaaaccctaaattcaatgtaaatcttaggtaaattctttccctcccaatacgaagagagaagaccgtgttgtgtttggattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g10140.1 (Oryza sativa), 3'ss of exon 1
-------gtaagataagaaaacc-----ctaaattcaatgtaaatcttaggtaaattctttccctcccaatacgaagagagaagaccgtgt-tgtgtttg---gattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
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gtgactgactagttaaccgtaccggttgcttaatttgactagagttatgcgtgatggcgagatgatcgatggcgacggtgaccgatcgagcgttcgttcgcgtggtggtgcagATCCTGATGCGGAGGTGATCGCGCTGTCGCCCAAGACGCTGCTGGCGACGAACAGGTTCGTTTGCGAGATCTGCAACAAGGGGTTCCAGCGCGACCAGAA
upper sequence: Vv18s0001g12220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G171073_T02 (Zea mays), 3'ss of exon 1
----------------------------------gtaagataagaaaaccctaaat-tcaatgtaaatcttaggtaaatt-ctttccctcccaatacgaagagagaagaccgtg-ttgtgtttg-gattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
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gtgattgatatttttttgttttgttttgtttttagtcgtttatagtggtccgaggtgtgtgtgcgtgccggggatagctagctctttgtcgtgatcgatggcgacggcgccgtggccgtggtggtggtggcgcagATCCTGACGCGGAGGTGATCGCGCTGTCGCCCAAGACGCTGCTGGCGACGAACCGGTTCGTGTGCGAGATCTGCAACAAGGGGTTCCAGCGGGACCAGAA
upper sequence: Vv18s0001g12220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G38290.1 (Glycine max), 3'ss of exon 1
gtaagataagaaaaccctaaattcaatgtaaatcttaggtaaattctttccctcccaatacgaagagagaagaccgtgttgtgtttggattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
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---gtaccacaaaa----aaattcatttt---ttttcaatcaatcatcatcatcttgtgttgtttttcttattttactttttatg-gggttattcagATCCGGATGCAGAGGTGATTGCTCTGTCTCCGAAGACCCTGATGGCCACGAACCGTTTCGTGTGTGAAATTTGCAACAAGGGGTTTCAGAGGGACCAGAA
upper sequence: Vv18s0001g12220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G66730.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaagataagaaaaccctaaattcaatgtaaatcttaggtaaattctttccctcccaatacgaagagagaagaccgtgttgtgtttggattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
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gtacttctcaaaaatccaaacttttttttttctgttttttgagtttgaaattttctgtttttagttgttctcactgatt---gtctaaatt---cagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA
upper sequence: Vv18s0001g12220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S165_3V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaagataagaaaaccctaaattcaatg----taaatcttaggtaaattctttccctcccaatacgaagagagaagaccgtgttg--tgtttggattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
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---tggtcataagattctgaaagtcgtgagcttggatcttgtgtaaagtttgtggagtgatgagttcaatctggcaaccgtactggatgatttgaatacgcagACCCGGAAGCCGAGGTGATCGCGTTGTCACCAAAAACATTGATGGCCACGAATCGATTCGTGTGCGAAATTTGTAACAAGGGTTTTCAGCGCGACCAAAA
upper sequence: Vv18s0001g12220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S125_69V6.1 (Physcomitrella patens), 3'ss of exon 1
gtaagataagaaaaccctaaattcaatgtaaatcttaggtaaattctttccctcccaatacgaagagagaagaccgt--gttgtgtttggattt----tgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
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ccttcgtgattagtctgcgaat---gtctctagctcgaacgtgtttttaagatcgtgaaggtgaattaattttttttccattggtattggattgaatacgcagACCCGGAAGCGGAGGTGATAGCTTTGTCACCAAAGACATTGATGGCCACGAATCGATTCGTGTGCGAAATTTGTAACAAGGGGTTTCAGCGAGATCAAAAMapped 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|71876298|gb|DT025353.1|DT025353EST: ACAACCAGTGGCACCAACGAAGAAGAAGCGGAATCTCCCTGGAACGCCAG ATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGA
genomic: ACAACCAGTGGCACCAACGAAGAAGAAGCGGAATCTCCCTGGAACGCCAGgtaagataag ... gattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attctttccctcccaatacgaagagagaagaccgtgttgtgtttggattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
atttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagataagaaaaccctaaattcaatgtaaatcttaggtaaattctttccctcccaatacgaagagagaagaccgtgttgtgtttggattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC