Sequence
atgc intronic sequence ATGC exonic sequenceGCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaataatcattgatctaagtactccttttttgtaattaagctttatggttcatttcttcaacataaactattttatgctagaaaaatgattagtgatggttttgcatttcatctctttctaaaactatgggctcacaataattttgtttgtatttgcattgttaag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os05g49260.1 (Oryza sativa), 5'ss of exon 8
GCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaa-taatcattgatctaagtactccttttttgtaattaagctttatggtt---catttcttcaacataaactattttatgctagaaaaatgattagtgatggttttgcatttcatctctttctaaaactatgggctcacaataattttgtttgtatttgcattgttaag
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GCAAAAATGAAAATGATGGATGATTTTGAGGCTTCTCTACAAGTTTTGAGGGGGTTTGAGACTGATATTACTGCAGAAgtgaatgatataaaggcaagcaattttatttttcttgattaactgactacaagtta--tttgcggtttcgcgtgatttcatcttagtaagattttcactaacacaacacttgg-gagatatgtac-tttcatttttctggaagactaatatggttcaaatccctgttatgcag-------------
upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA17G36950.1 (Glycine max), 5'ss of exon 9
-GCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaataatcattgatctaagtactccttttttgtaattaagctttatggttcatttcttcaacataaactattt--tatgctagaaaaatgattagtgatggttttgcatttcatctctttctaaaactatgggctcacaataattttgtttgtatttgcattgttaag
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GGCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGATACTGATATTTCTGTTGAAGTGAATGAAATTAAggtaataagcattcatc--agttttgttccaatgca--tgaccctcatatttcctatatttt-tatttaccatttaatgtatcctaaaattgactttttatg----tgggagtcattttattca----------------------------------------------
upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA14G08070.1 (Glycine max), 5'ss of exon 9
GCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaataatcattgatctaagtactccttttttgtaattaagctttatggttc--atttcttcaacataaactattttatgctagaaaaatgattagtgatggttttgcatttcatctctttctaaaactatgggctcacaataattttgtttgtatttgcattgttaag
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GCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGAGACTGATATTTCTGTTGAAGTGAATGAAATTAAGgtaataagcatca---tcagttttgttccaatgca--tgaccctcatatttcctatatttttattaccattaaatgtatccta--aaattgactttttatg----tgggagtcattttattcag---------------------------------------------
upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT1G75220.1 (Arabidopsis thaliana), 5'ss of exon 9
GCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaataatcattgatctaagtactccttttttgtaattaagctttatggttcatttcttcaacataaactattttatgctagaaaaatgattagtgatggttttgcatttcatctctttctaaaactatgggctcacaataattttgtttgtatttgcattgttaag
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GCAAAAATGGGTATGACAGATGAATTTGAAACTTCATTACAAGTTCTTCGAGGATTTGAGACTGATATTACCGTTGAAGTTAATGAAATCAAGgtaacact-accacttaaaatctttccttccaagagtta--catgaagactggttttcaaacgctaatttttcatcttttctgcaaatctgcag-------------------------------------------------------------------------
upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT1G19450.1 (Arabidopsis thaliana), 5'ss of exon 9
GCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaataatcattgatctaagtactccttttttgtaattaagctttatggttcatttcttcaacataaactattttatgctagaaaaatgattagtgatggttttgcatttcatctctttctaaaactatgggctcacaataattttgtttgtatttgcattgttaag
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GCAAAGATGGGTTTGACAGATGATTTCGAAACTTCATTGCAAGTTCTTCGTGGATTTGAGACTGATATTACCGTTGAGGTTAATGAAATCAAGgtagtgacta--aactgaagaaatgctttgatgtgatttcttgtcttatttaaaattttcattttatgc-actctgcag----------------------------------------------------------------------------------------Mapped 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|33404093|gb|CF209720.1|CF209720EST: TTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAG AGGGCTGTTGCATCAACGAGCAGAAGAACAACAATCCGATTTGCAGAACTC
genomic: TTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaataatca ... cattgttaagAGGGCTGTTGCATCAACGAGCAGAAGAACAACAATCCGATTTGCAGAACTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAGgtaataatcattgatctaagtactccttttttgtaattaagctttatggttcatttcttcaacataaactattttatgctagaaaaatgattagtgatggttttgcatttcatctctttctaaaactatgggctcacaataattttgtttgtatttgcattgttaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG