Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgcctcagtagttacatgtcaccaattttgtttccaatactgcatggcaatatcaaatttgaaattagcttgtttattgattattgatcattagtgtttctgtgtaatggttgctctgttgaggtcttttccttgatattatactcctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAAGTTTATCATGGGGATCCTAAAGGGGATGAGTCTGCAGTTAAAGCATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os02g58080.1 (Oryza sativa), 3'ss of exon 9
gtaagtgcctcagtagttacatgtcaccaattttgtttccaatactgcatggcaatatcaaatttgaaatta-gcttgtttattgattattgatcattagtgtttctgtgtaatggttgctctgttgaggtcttttccttgatattatactcctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAAGTTTATCATGGGGATCCTAAAGGGGATGAGTCTGCAGTTAAAGCATATG
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----------------------------------------------gtatgctaccttaagacatctatgcatgtatatcagctgcatgctgattgtc--tcttactgttttggaatttgtagattgatgg-tgttcatccatatcgtttgctt---tgcagTTGTCGTGGTTTCCCTTTTTCCTTTTTGATACTGACTGGATGGGACGTGAGGTTTACCATGGGGACCCAAATGGCAACTTGAGTGAAAGGAAAGCTTATG
upper sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G145107_T03 (Zea mays), 3'ss of exon 9
gtaagtgcctcagtagttacatgtcaccaattttgtttccaatactgcatggcaatatcaaatttgaaattagcttgtttattgattattgatcattagtgtttctgtgtaatggttgctctgttgaggtcttttccttgatattatactcctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAAGTTTATCATGGGGATCCTAAAGGGGATGAGTCTGCAGTTAAAGCATATG
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-------------------------------------------------gtacgctaccagattacatatatacatgcctaccgactccttgctgatggtttgttttattcgaggttgat--------gatttacccttg---ttttattttgccttgcagTTGTCATGGTTTCCCTTTTTCCTTTTTGACACTGACTGGATGGGACGCGAAGTTTACCATGGGGATCCAAATGGAGATTTGAGTGAGAGGAAAGCTTATG
upper sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 9
gtaagtgcctcagtagttacatgtcaccaattttgtttccaatactgcatggcaatatcaaatttgaaattagcttgtttattgattattgatcattagtgtttctgtgtaatggttgctctgttgaggtcttttccttgatattatactcctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAAGTTTATCATGGGGATCCTAAAGGGGATGAGTCTGCA-GTTAAAGCATATG
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gtgagtgccaaagaaaaattatg--atcagtt--attac--atatttca---cactgtttcttttc---ttaaactctttaatgatctttaaaattatttgcttctgttatatttttg----attgtggtcttgttctt-----------------tgcagTTATCCTGGTTCCCCTTCTTTCTGTTCGATACAGATTGGATGGGAAGAGAAGTTTACCATGGGGATCCAACAGGAGAT-AGTTTGCATATGGAACTCTATG
upper sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ32955 (Selaginella moellendorffii), 3'ss of exon 9
gtaagtgcctcagtagttacatgtcaccaattttgtttccaatactgcatggcaatatcaaatttgaaattagcttgtttattgattattgatcattagtgtttctgtgtaatggttgctctgttgaggtcttttccttgatattatactcctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAAGTTTATCATGGGGATCCTAAAGGGGATGAGTCTGCAGTTAAAGCATATG
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------------------------------------------------------------------------------------------------------------gtaagaatctcttttcttctagttgatttctaactttgtggtttct----cagCTATCCTGGTTTCCTTTCTTCCTCTTTGATACGGATTGGATGGGCCGAGAAGTTTACAACGGTGATCCTTCTGGTGGTATTGACAAGGCGAAGAGCTATCMapped 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|161719459|gb|FC067681.1|FC067681EST: ATTTGCCACCTGCAATGCATTCAGTGCTTCTTGTCATGGCTCTTAGTTGG CTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAA
genomic: ATTTGCCACCTGCAATGCATTCAGTGCTTCTTGTCATGGCTCTTAGTTGGgtaagtgcct ... ctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtaatggttgctctgttgaggtcttttccttgatattatactcctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAAGTTTATCATGGGGATCCTAAAGGGGATGAGTCTGCAGTTAAAGCATATG
ccttgat putative branch site (score: 5)
tactcct putative PPT
ttgatattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgcctcagtagttacatgtcaccaattttgtttccaatactgcatggcaatatcaaatttgaaattagcttgtttattgattattgatcattagtgtttctgtgtaatggttgctctgttgaggtcttttccttgatattatactcctgtatgcagCTGTCCTGGTTTCCCTTCTTTCTTTTTGATACGGATTGGATGGGTAGAGAAGTTTATCATGGGGATCCTAAAGGGGATGAGTCTGCAGTTAAAGCATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG