Sequence
atgc intronic sequence ATGC exonic sequence...aatttgaccataggatcaagtgctggatttggtatctataaaactaatgaaagaatgacattggattttcttttaacatgtgatgtgactaaatatacagGCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTTATCAAGCATCGGTTGGGAGATCTGTTCTATCGTCTTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 18
aatttgaccataggatcaagtgctggatttg----gtatctataaaactaatgaaagaatgacattggattttc----ttttaacatgtgatgtgactaaatatacagGCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTTATCAAGCATCGGTTGGGAGATCTGTTCTATCGTCTTGT
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-------ccaaagtgttattactttggcctgaaaagaaattttagttaagatggctaaattgtattcaaagtgtagaactttaatgtggggt-tggatacatgtgcagGCAGTAGAGAGGGGAGCTGGTTCAGATGGTCAGAAGATATCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT
upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 18
aatttgaccataggatcaagtgctggatttg----gtatctataaaactaatgaaagaatgacattggattttct----tttaacatgtgatgtgactaaatatacagGCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTTATCAAGCATCGGTTGGGAGATCTGTTCTATCGTCTTGT
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-------ccaaagtgttattactttggcctgaaaagaaattttagttaagatggctaaattgcattcgaagtgtaggaatttaatgtggggt-tggatacatgtgcagGCAGTAGAGAGGGGAGCTGGTTCAGATGGTCAGAAGATATCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT
upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 3'ss of exon 18
aatttgaccataggatcaagtgctggatttggtat-ctataaaactaatgaaagaatgacattggattttcttttaacatgtgatgtgact-aaatatacagGCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTTATCAAGCATCGGTTGGGAGATCTGTTCTATCGTCTTGT
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-----gtaaataagatgagat-ttatacatactatgctaagtggggattaaggtcaattggtttgtctaggtaaaaacccattaattgttttggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTTATCAAGCATCGCTTAGGAGATCTTTTCTACCGTTTAGTMapped 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|22010913|gb|BQ795947.1|BQ795947EST: GCAATATTATCCATTTCTATAATTTGGCCAATCAG GCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTT
genomic: GCAATATTATCCATTTCTATAATTTGGCCAATCAGgtacgatgtt ... aaatatacagGCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgaaagaatgacattggattttcttttaacatgtgatgtgactaaatatacagGCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTTATCAAGCATCGGTTGGGAGATCTGTTCTATCGTCTTGT
gactaaa putative branch site (score: 2)
attttcttttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttgaccataggatcaagtgctggatttggtatctataaaactaatgaaagaatgacattggattttcttttaacatgtgatgtgactaaatatacagGCAGTAGAGCGTGGAGCTGGTATGGATGGACAGAAGATAACTTACACCCTTATCAAGCATCGGTTGGGAGATCTGTTCTATCGTCTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - -ccatagg
- - - - - - - - - -gtgctgg
- - - - - - - - - - - - - - - - - - - - aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - gaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtga