Sequence
atgc intronic sequence ATGC exonic sequencegtaaacatggttctgccttccatatttatattctacggacttgtcctatatttaaatttaatgttattggatcatgtcatctttcttatggtatacttactggtgtccatacttgagcttattttatataactaataatgcattgtttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGTTGTCAGGCGGAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G07160.1 (Glycine max), 3'ss of exon 8
gtaaacatggttctgccttccatatttatattctacggacttgtcctatatttaaatttaatgttattggatcatgtcatctttcttatggtatacttactggtgtccatacttgagcttattttatataactaataatgcattgtttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGTTGTCAGGCGGAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAA
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---------------------gtacttagtttctt---atctcttcaacttttacatct---gttatttaatttcatattcatttat-tggtattcc-acatataactaccttccaa---atttgattgcgatctttttttcttgttgaaaacagCATTCTCCTCCATGGTAGAGGGAAAGAATGAGGAGATGTCTACATCTGAGCTGTCTGGGGGTGCAAGAATTCATTACATTTTTCAATCCATCTTTGTGAA
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 8
gtaaacatggttctgccttccatatttatattctacggacttg--tcctatatttaa-atttaatgttattggatcatgtcatctttcttatggtatacttactggtgtccatacttgagcttattttatataactaataatgcattgtttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGTTGTCAGGCGGAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAA
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--gtacttagtcatcccttttat-ctggtttcttatctcttcaacttttacatctgttatttaatttcattt--ttttcatattcatttattggtattccttata-taactaccttccaaatttgattatgtcatcttttcttc-ttgttgaaaacagCATTCTCCTCCATGGTAGAGGGAAAGAATGAGGAGATGTCTACATTTGAGCTTTCTGGGGGTGCACGAATTCATTACATTTTTCAATCCATCTTTGTGAA
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G33650.2 (Arabidopsis thaliana), 3'ss of exon 8
gtaaacatggttctgccttccatatttatattctacggacttgtcctatatttaaatttaatgttattggatcatgtcatcttt-cttatggtatacttactggtgtccatacttgagcttattttatataactaataatgcattgtttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGTTGTCAGGCGGAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAA
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--------------------------------------------gtaatatgtgaagacgatatt-tcagttgagaccattgacatttgttttatgttttctatggttcatagt-gagtct------catgggtaa------atttttttgaacagCATACTCTTCATTGCTGGAAGGGAAAAGTGAAGAAATGTCTACGTCAGAGCTCTCTGGAGGAGCAAGAATTCACTATATTTTCCAGTCAATCTTTGTTAAMapped 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|122689415|gb|EC938921.1|EC938921EST: GCTGGTCAGGGAGCTCTACTCTTGAACATTCTTTCTAAATATGCTGAAG CATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGT
genomic: GCTGGTCAGGGAGCTCTACTCTTGAACATTCTTTCTAAATATGCTGAAGgtaaacatgg ... tttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGT
EST:
gi|352764636|gb|FQ469711.1|FQ469711EST: --T---CAGGGAGCTCTACTCTTGAACATTCTTTCTAAATATGCTGAAG CATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGT
genomic: GCTGGTCAGGGAGCTCTACTCTTGAACATTCTTTCTAAATATGCTGAAGgtaaacatgg ... tttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtgtccatacttgagcttattttatataactaataatgcattgtttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGTTGTCAGGCGGAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAA
aactaat putative branch site (score: 2)
ttattttatataacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacatggttctgccttccatatttatattctacggacttgtcctatatttaaatttaatgttattggatcatgtcatctttcttatggtatacttactggtgtccatacttgagcttattttatataactaataatgcattgtttaaaacagCATTCTCTTCAAGGGTGGAGGGAAAAAATGAAGAAATGTCGACTGCTGAGTTGTCAGGCGGAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA