Sequence
atgc intronic sequence ATGC exonic sequence...atacagccttttggtgagtttttgctacttagctcatcttttatttctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os05g43570.3 (Oryza sativa), 3'ss of exon 11
--atacagccttttggtgagtttttgctacttagctcatcttttatttctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
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ttttaggaggcagaaattaacatgcttaattagagatgtttcattttcgtattgcctcttagccaatgaactaaaacgaagagcactgctattt--ttgcagATGCTTCCGTCCAAGGATGCAAACTTTGTTGGCTATACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTG
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G375904_T02 (Zea mays), 3'ss of exon 11
------atacagccttttggtgagtttttgctacttagctcatcttttatttctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
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acatatttataaacttgctttggaatttt--cactcatattggagcttcattttgttagtcccaatcaatgaattgaaaaca----aaaacactattcttttacagATGCTTCCATCCAAAGATGCAAACTTTGTTGGGTATACGTACAAGAACTTTGAAATTGTGAATGATGATGAAGTGGCAGGAATTG
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 10
atacagccttttggtgagtttttgctact-tagctcatcttttatttctagtagtctgtatctaga-atttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
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ttattttttgtaccacaagaatcacaattctatttaaaaacttagatactgagccttgcatctttagatttggtaactgattaattgttccttta--tgtagATGCTTTCCTCCAAGGACGTGAACTTTGTTGGCTATACCTACAAGAACTTTGAAATTGTGAACGATCCTGAGCTTCCAGGAATTG
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G30640.1 (Arabidopsis thaliana), 3'ss of exon 11
atacagccttttggtgagtttttgctacttagctcatcttttatttctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
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-------------gtatatatatac-attt---ccttcgtttctttgcagtacattaaaccaag--ttccaccattcata-----ctaagtaatttgcagATGATCTCATCCAAAGATGCAAATTTCCTTGGTTATACATTCAAGAATCTGGAGATAGTTGATGAACACCATATCCCTGGCATGG
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ29515 (Selaginella moellendorffii), 3'ss of exon 10
atacagccttttggtgagtttttgctacttagctcatcttttatttctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
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---------------------------gtaagttgttcttgtgtt---gatcatct-tattttccgtt---gcactcaccgtcttgctcttt-----tagATGCTACCTTCGAGAGATGTTAATTTCGTTGGTTACACGTACAAGAACTTTGAAATTCACCAAGATGCCCGTGTTCCTGGGATGG
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ28086 (Selaginella moellendorffii), 3'ss of exon 10
atacagccttttggtgagtttttgctacttagctcatcttttatttctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
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---------------------------gtaagttgttcttgtgtt---gatcatct-tattttccgtt---gcactcaccgtcttgctcttt-----tagATGCTACCTTCGAGAGATGTTAATTTCGTTGGTTACACGTACAAGAACTTTGAAATTCACCAAGATGCCCGCGTTCCTGGGATGGMapped 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|30126794|gb|CB912133.1|CB912133EST: TTGGGGACTACAGGTCAATCGTCATCAAGGTCAGGTCCCTGGAAGAAG ATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTT
genomic: TTGGGGACTACAGCTCAATCGTCATCAAGGTCAGGTCCCTGGAAGAAGgtaagtttca ... ttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTT
EST:
gi|110360863|gb|EC924293.1|EC924293EST: TTGGGGACTACAGCTCAATCGTCATCAAGGTCAGGTCCCTGGAAGAAG ATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTT
genomic: TTGGGGACTACAGCTCAATCGTCATCAAGGTCAGGTCCCTGGAAGAAGgtaagtttca ... ttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
ctttgat putative branch site (score: 5)
ttccttatttcatt CT-rich tract
ttatttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atacagccttttggtgagtttttgctacttagctcatcttttatttctagtagtctgtatctagaatttgagaattctttgattccttatttcattgcagATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTG
- -cagcctt
- - - - - -tggtgag
- - - - - - - - - - -ttgctac
- - - - - - - - - - - - - - - -gctcatc