Sequence
atgc intronic sequence ATGC exonic sequence...cttcaggagatttgtcaatatgcaaaagtatttaaagcactgtattttataccaatcctttcttactatcatttttttttcacatgttaaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G079389_T01 (Zea mays), 3'ss of exon 10
-------------------------------------------------------------cttcaggagatt--tgtcaatatgcaaaagtatttaaagca-----ctgtattttatac-caatcctttct-tactatca-tttttttttcacatgtt---aaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT
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gtaggtatcagaatctttgttgttctgtacaggaaagttgaaactaggtctttggtctaccaattggaagtttccttttgaacttccctactatttgctgctacagtttttattttgcgtgcaacactatttgtagtactaactgtttaatgataagcttgtatacacttgcagGATGTCTACCTTCACACAAACTGTCTTGCTATTTTAGCAAACATGGCTCCTCATGTGCATAGGCTGAGTGCTTATGCATCACAAAGGCTAGTTAGTCTCT
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G00550.1 (Glycine max), 3'ss of exon 10
cttcaggagatttgtcaatatgcaaaagtatttaaagcactgtat-tttataccaatcctttcttac----tatcatttttttttcacatgttaaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT
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----attgtgtttgtaagctt-caagtttgtattaattacttaatgtttccattgatatgtttatatggtgtgctaaaataggatattatgttgaattgtgatagGATGTATATCTTCATACAACATGTCTGGCAACATTGGCAAACATGGCACCTCATGTCCACCGTTTGAGTGCATATGCATCTCAGAGACTAGTCAGCCTCT
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G24080.1 (Glycine max), 3'ss of exon 12
cttcaggagatttgtcaatatgcaaaagtatttaaagcactgtattttataccaatcctttcttactatcatttttttttcacatgttaaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT
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------------------------------------------------------------gtaagctaaaataggatatt---gtgttgaattgtgatagGATGTATATCTTCATACAACATGTCTGGCAACATTGGCAAACCTGGCACCACATGTCCACCGTTTGAGTGCATATGCATCTCAGAGACTAGTCAGCCTCT
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 10
-----------------------------------------------------------cttcaggagatttgtcaatatgcaaa----agtatttaaagcactgtattttataccaatcctttcttactatca-------tttttt------tttcacatgttaaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT
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gtatggctttagattcatatcttagcaatgaaaatgtttttttcagacaaattcgttttagtttggcagtttgggtaggtgctaggtgcagctttataagagtgatgtcacgttaaaatcttagccagatatcaaaataacttttgtgacaaattctgtttcttgggctgttacagGATGTGTATCTGCAGACTACTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTTMapped 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|161714238|gb|FC064147.1|FC064147EST: TGGTCATAATTCTCATTAGGACTGTGAAATATAACCTATCTAAGCTGCGG GATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCT
genomic: TGGTCATAATTCTCATTAGGACTGTGAAATATAACCTATCTAAGCTGCGGgtatgacttg ... attgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttataccaatcctttcttactatcatttttttttcacatgttaaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT
ttcttac putative branch site (score: 2)
tatcatttttttttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcaggagatttgtcaatatgcaaaagtatttaaagcactgtattttataccaatcctttcttactatcatttttttttcacatgttaaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT
cttcagg
- - - - - - - - - - - -aaaagta
- - - - - - - - - - - - - - - - -aaagcac
- - - - - - - - - - - - - - - - - - - - - - - - ataccaa