Sequence
atgc intronic sequence ATGC exonic sequencegtctctctctctctctctctctctctctctcctccccacccccacctcagcctacttaaaataaaaactgaaattcaaactacgtgctaattccagACAGGATCAACAGAATGGGTTGAAGAGAACAGGGAAATGCTAGCTTCGAAGGCTATTGCTTATTTGAATGTTGACAGTGCAGTGTCTGGAGCAGGATTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g53800.1 (Oryza sativa), 3'ss of exon 4
------gtctctctctctctctctctctctctctctcctccccacccccacctcagcctacttaaaataaa---aactgaaattcaaactacgtgctaattcca--------gACAGGATCAACAGAATGGGTTGAAGAGAACAGGGAAATGCTAGCTTCGAAGGCTATTGCTTATTTGAATGTTGACAGTGCAGTGTCTGGAGCAGGATTCT
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gtaaatatctctgactctctctctctctctctctctctgcactatatatgtacagagttatgcagagtaagagcaactagaatggtgatcattcacaacttacatttatgcagACAGGATCAACTGAATGGGTTGAAGAAAATAGGGAGATGCTTTCCTCAAGAGCTGTTGCTTATCTTAACGTTGACGTTTCAGTAGTTGGCCCGGTATTTC
upper sequence: Vv11s0016g03010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G118806_T03 (Zea mays), 3'ss of exon 4
gtctctctctctct-ctctctctctctctctcctccccacccccacctcagcctacttaaaataaaaactgaaattcaaactac----gtgctaattccagACAGGATCAACAGAATGGGTTGAAGAGAACAGGGAAATGCTAGCTTCGAAGGCTATTGCTTATTTGAATGTTGACAGTGCAGTGTCTGGAGCAGGATTCT
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gtctctctctctcgactcaattgttcacaacaatatcctgttttttttaacaacaattaacatgtcttcttga-tacaattttctttggggaacattgcagACAGGATCCACTGAATGGGTCGAGGAGAACAGGGCAATGCTAACTTCAAGAACTGTTGCTTACCTAAATGTTGATTCTGCAGTGGCTGGTCATGGATTTT
upper sequence: Vv11s0016g03010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G118806_T02 (Zea mays), 3'ss of exon 3
gtctctctctctctctctctctct-ctctctcctccccacccccacctcagcctacttaa-----aataaaaactgaaattcaaactacgtgcta--------attccagACAGGATCAACAGAATGGGTTGAAGAGAACAGGGAAATGCTAGCTTCGAAGGCTATTGCTTATTTGAATGTTGACAGTGCAGTGTCTGGAGCAGGATTCT
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gtatggattggtctctctctctcgactcaattgttcacaacaatatcctgttttttttaacaacaattaacatgtcttcttgatacaattttctttggggaacattgcagACAGGATCCACTGAATGGGTCGAGGAGAACAGGGCAATGCTAACTTCAAGAACTGTTGCTTACCTAAATGTTGATTCTGCAGTGGCTGGTCATGGATTTT
upper sequence: Vv11s0016g03010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G01000.1 (Glycine max), 3'ss of exon 4
gtctctctctctctctctctctctctctctcctccccacccccacctcagcctacttaaaataaaaactgaaattcaaactacgtgctaattccagACAGGATCAACAGAATGGGTTGAAGAGAACAGGGAAATGCTAGCTTCGAAGGCTATTGCTTATTTGAATGTTGACAGTGCAGTGTCTGGAGCAGGATTCT
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gtaattttctttacttcttt---tgtctctccttgttactcacaaa--ggtgtgtgcaacatgaaagtt-----tgataatggttattgcctccagATAGGATCAACTGAATGGGTAGAAGAGAACAGAGAAATTCTTGCTTCAAAGGCAGTTGCTTACTTGAATGCTGATTGTGTAGTAGGTGGACCAGGGTTCAMapped 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|161710708|gb|FC060286.1|FC060286EST: CTAGACGGACAATAGTCCTTTGCAATTGGGACGCAGAGGAATATGGCCTG ACAGGATCAACA
genomic: CTAGACGGACAATAGTCCTTTGCAATTGGGACGCAGAGGAATATGGCCTGgtctctctct ... ctaattccagACAGGATCAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccacctcagcctacttaaaataaaaactgaaattcaaactacgtgctaattccagACAGGATCAACAGAATGGGTTGAAGAGAACAGGGAAATGCTAGCTTCGAAGGCTATTGCTTATTTGAATGTTGACAGTGCAGTGTCTGGAGCAGGATTCT
tgctaat putative branch site (score: 2)
tacttaaaataaaaac 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
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gtctctctctctctctctctctctctctctcctccccacccccacctcagcctacttaaaataaaaactgaaattcaaactacgtgctaattccagACAGGATCAACAGAATGGGTTGAAGAGAACAGGGAAATGCTAGCTTCGAAGGCTATTGCTTATTTGAATGTTGACAGTGCAGTGTCTGGAGCAGGATTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG