Sequence
atgc intronic sequence ATGC exonic sequence...acacataacagagttatctaatagtttgaagtaagtgattcagttctccttttaaaaatattgtcacactgttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g56210.1 (Oryza sativa), 3'ss of exon 3
acacataacagagttatctaatagtttgaagtaagtgattcagttctccttttaaaaatattgtcacact----gttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAA---GGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
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---gatctttaacccttgtag-acctcaattcgcgcattctttttcactttgtcatcacatactcacaccccaagtttcattcactttttctccttctgtgcagTGCTTGCTTGTGAAGGGATGGAAGTCTAGCGCCAGCTGGAGTTTTCCTCGTGGAAAGAGGAGTAAAGATGAAGAAGATCATACATGTGCTGTTAGAGAA
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G150209_T01 (Zea mays), 3'ss of exon 3
-acacataacagagttatctaatagtttgaagtaagtgattcagttctccttttaaaaatattgtcacactgttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAA---GGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
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tttttttgactcttttgagctcaatttttgtttgggtggggtggggcttggggttgtgtttcttttcaagaccaattat-cttttccccccttctctgcagTGCTTGCTTGTTAAAGGATGGAAGGCTGGGGCCAGCTGGAGCTTTCCTCGTGGAAAGAGGAATAAAGATGAGGAAGACCACACATGTGCTGTTAGAGAA
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G051756_T01 (Zea mays), 3'ss of exon 3
--acacataacagagttatctaatagtttgaagtaagtgattcagttctccttttaaaaatattgtcacactgttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAA---GGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
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ttttttttactcttttgagctcaatttttgtatgggtggggtggggcttggggttgtgtttcttttcaagaccaattat--cttttccccccttctctgcagTGCTTGCTTGTTAAAGGATGGAAGGCTGGGGCCAGCTGGAGCTTTCCTCGTGGAAAGAGGAATAAAGATGAGGAAGACCACACATGTGCTGTTAGAGAA
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G08170.1 (Glycine max), 3'ss of exon 3
acacataacagagtt-atctaatagtttgaagtaagtgattcagttctccttttaaaaatatt--gtcacact-gttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
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----atctctgaactgatataatagtattaagagattctttcagagctatttattgctatgttaagccatatttacttacatgcctgctgtggacactggacagTGCTTGCTAGTGAAGGGATGGAAAGGTTCAAGCTGGAGCTTCCCTCGTGGAAAAAAGAGCAAAGACGAAGAAGATCATGCATGTGCCATTAGAGAA
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G27200.1 (Glycine max), 3'ss of exon 3
-------acacataacagagtt-atctaatagtttgaagtaagtgattcagttctccttttaaaaatattgtcacactgttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
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aagatcctttcatatctgaactgatataatagtatcaagagattctttcagacttatttatttctatgttaa-gccctatttacttgcctgctgtg-------gacagTGCTTGCTAGTGAAGGGATGGAAAGGTACAAGTTGGAGTTTCCCTCGTGGAAAAAAGAGCAAAGACGAAGAAGATCATGCATGTTCCATTAGAGAA
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G13570.1 (Arabidopsis thaliana), 3'ss of exon 3
acacataacagagttatctaatagtttgaagtaagtgattcagttctccttttaaaaatattgtcacactgttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
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----------------gtaagaaccctgtggggtgatatttaggtttacttattagttaatgcttaccct-ttttgtttcat------tgtcattttcagTGCCTGTTGGTGAAGGGATGGAAAGGATCGAGCTGGAGCTTTCCCCGCGGAAAAAAGAGCAAGGATGAAGAAGACCATGCTTGTGCCATACGTGAGMapped 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|110366533|gb|EC930443.1|EC930443EST: TTCGAGTACCTGTAACTGGGGCAATCATTTTGGATGAAACCTTTGAACGG TGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGA
genomic: TTCGAGTACCTGTAACTGGGGCAATCATTTTGGATGAAACCTTTGAACGGgtgaggactc ... taattaacagTGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctccttttaaaaatattgtcacactgttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
ttttgat putative branch site (score: 4)
atacttgttttgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acacataacagagttatctaatagtttgaagtaagtgattcagttctccttttaaaaatattgtcacactgttttgatacttgttttgtataattaacagTGCTTACTAGTGAAGGGATGGAAAGGAACAAGCTGGAGTTTTCCCCGTGGAAAAAAGAACAAAGATGAAGAAGACCACACGTGTGCCATTAGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - -taacaga
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacactg