Sequence
atgc intronic sequence ATGC exonic sequencegttaccttccatgttcttctcttatcataagcagcagcagaagactgaattaatcagtttttgctgaatattttgatcttatcattcaaagaatttactaatgattcctatcgtgaacatgtgacagAAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAATTTGATCCTGCAAAGCGGTGGTCACCTTTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g00610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os02g47410.3 (Oryza sativa), 3'ss of exon 11
gttaccttccatgttcttctcttatcataagcagca-gcagaagactgaattaatcagtttttgctgaatattttgatcttatcattcaaagaatttactaatgattcctatcgtgaacatgtgacagAAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAATTTGATCCTGCAAAGCGGTGGTCACCTTTTCAG
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--------------------cttagtattagtctcttgaatgataatatcctagtc--cttatgatgaa-gttgcaggtttgacatt-----atcttctcacctatttcaattttgattcagagacagAAAAGACAGATCGCTTAGCACTGGTTGATTTCTTGAGAGGGCTTGTTGAGTTTGATCCTAATAAGCGGTGGTCACCATTGCAG
upper sequence: Vv16s0039g00610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os02g47410.2 (Oryza sativa), 3'ss of exon 11
gttaccttccatgttcttctcttatcataag-cagcagcagaagactgaattaatcagtttttgctgaatattttgatcttatcattcaaagaatttactaatgattcctatcgtgaacatgtgacagAAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAATTTGATCCTGCAAAGCGGTGGTCACCTTTTCAG
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--------------ttatttcttagtattagtctcttgaatgataatatcctagtc--cttatgatgaa-gttgcaggtttgacatt-----atcttctcacctatttcaattttgattcagAGACAGAAAAGACAGATCGCTTAGCACTGGTTGATTTCTTGAGAGGGCTTGTTGAGTTTGATCCTAATAAGCGGTGGTCACCATTGCAG
upper sequence: Vv16s0039g00610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G18110.1 (Glycine max), 3'ss of exon 13
gttaccttccatgttcttctctta--tcataagcagcagcagaagactgaattaatcagtttttgc-tgaatattttgatcttatcattcaaa--gaatttactaatgattcctatcg----tgaacatgtgacagAAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAATTTGATCCTGCAAAGCGGTGGTCACCTTTTCAG
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gttagcttcccaagaaggctggaaatttctgctcaacttgattttgctatttttttctgtgcatgtgtgcatgctttatttcacttattcaacttgattgaactaatgaatgctatacatattgaacttgtaatagAAAGTCAAATACGACTGGCTCTTATAGATTTTCTGAAAGGGCTTGTTGAATTTGATCCTGCAAAACGCTGGTCACCCTTTCAGMapped 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|30304109|gb|CB980903.1|CB980903EST: TACAAACTACCCTTACAGAAAGAACTTGGCTGAGGAAGATATTGTCAAAG AAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAAT
genomic: TACAAACTACCCTTACAGAAAGAACTTGGCTGAGGAAGATATTGTCAAAGgttaccttcc ... catgtgacagAAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatcttatcattcaaagaatttactaatgattcctatcgtgaacatgtgacagAAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAATTTGATCCTGCAAAGCGGTGGTCACCTTTTCAG
tactaat putative branch site (score: 1)
aaagaatttactaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaccttccatgttcttctcttatcataagcagcagcagaagactgaattaatcagtttttgctgaatattttgatcttatcattcaaagaatttactaatgattcctatcgtgaacatgtgacagAAAGTCGAGTTCGGTTGGCACTGATTGATTTCTTGAGGGGACTGGTTGAATTTGATCCTGCAAAGCGGTGGTCACCTTTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG