Sequence
atgc intronic sequence ATGC exonic sequence...ttggttttcagcattgtgtgttgtcttcaagttgattggtaatgcaccattaattattactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g15580.1 (Oryza sativa), 3'ss of exon 5
-ttggttttcagcattgtgtgttgtcttcaagttgattggtaatgcaccattaattattactaaaccatggat--ttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
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ggtcattgatggcttaatacaaagattcctagttagctgataat-taccggctatccct-ttagttaattaatcccttcattctttttctcaccatt-tgcagGTTCCAATGTTTGAAAACATGGATGAGAAGCTCTTGGATGCCATGTGTGATCGTCTAAAGCCCATGCTGTACACAGAAGGCAGCTGCATCATTCGCGAAG
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
ttggttttcagcattgtgtgttg-tcttcaagttgattggtaatgcaccattaat-ta--ttactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
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----gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgttattagcatggttaaccttttgctgctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G13200.1 (Glycine max), 3'ss of exon 7
ttggtt--ttcagcattgtgtgttgtcttcaagttgattggtaatgcaccattaattattactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
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ttgaaaagtaaaccaattatcgttcctattggaagaatagttggttttccatgtaatatt--ttagtaataaccaaatccttctcttttgcatgaacttaagGTGCCAATGTTTGAGAACATGGACGAGCAACTTTTGGATGCTATGTGTGACCGACTCAAGCCAGTGCTGTACACAGAAGAAAGCTGCATTGCCCGGGAAG
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G41610.2 (Glycine max), 3'ss of exon 7
----ttggttttcagcattgtgtgttgtcttcaagttgattggtaatgcaccattaattattactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
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taaaccaattattgttgctattggaagttttgaagct-atagttcattttccatgtaatatt--ttagtaata-actaaaatctttctcttgcatgaacttaagGTGCCAATGTTTGAGAACATGGACGAGCAACTTTTGGATGCTATGTGTGACCGACTCAAGCCAGTGCTATACACAGAAGAAAGCTGCATTGTCCGGGAAG
upper sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G31940.1 (Glycine max), 3'ss of exon 6
---ttggttttcagcattgtgtgttgtcttcaagttgattggtaatgcaccattaattattactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
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gattttaatgacattgctattggaaaaatcaaaagctattgccaattttcagtttaattttagtaaa--aaccaaccaaatcttct-cttgtacggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGACCTTCTCAAGCCAGTGCTTTACACAGAAGAAAGCTACATTGTCCGGGAGGMapped 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|161715417|gb|FC068048.1|FC068048EST: ACCTTAGAAGGGACATAAAACGCCATCTCTGCTTGGCTCTGCTCAGGAGA GTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGAC
genomic: ACCTTAGAAGGGACATAAAACGCCATCTCTGCTTGGCTCTGCTCAGGAGAgtgagttcac ... cattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGAC
EST:
gi|110416312|gb|EC982283.1|EC982283EST: ACCTTAGAAGGGACATAAAACGCCATCTCTGCTTGGCTCTGCTCAGGAGA GTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGAC
genomic: ACCTTAGAAGGGACATAAAACGCCATCTCTGCTTGGCTCTGCTCAGGAGAgtgagttcac ... cattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accattaattattactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
tactaaa putative branch site (score: 1)
taattattactaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggttttcagcattgtgtgttgtcttcaagttgattggtaatgcaccattaattattactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGG
- - - - cagcatt
- - - - - - - - - tgttgtc
- - - - - - - - - - - - - - - - tgattgg
- - - - - - - - - - - - - - - - - - - - - tgcacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaccat