Sequence
atgc intronic sequence ATGC exonic sequence...tgtattctttcttatacatgcagcatgtttctcttatatccttatgattggttctttggcttttaactgtcttgtggtccaacattttgaaattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAGTTTAGTGTGATATGGAATTTTCAACAGGTGAAGAATGGCTCCCATGAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10540.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G04120.1 (Glycine max), 3'ss of exon 1
tgtattctttcttatacatg-cagcatg-tttctcttatatcctt-atgattggttctttggcttttaactgtcttgtggtccaacattttgaaattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAGTTTAGTGTGATATGGAATTTTCAACAGGTGAAGAATGGCTCCCATGAGT
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-ccacatctgctgagaaatgacatcttggtttttattgtgtctttcatattttaatcatgtggaaatatatttttattattccaacttcttgga--tgcttagGTGACAGAGAATGGGAAACAGGAGCGGCATATAGTAGCCACTGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
upper sequence: Vv18s0001g10540.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G04290.1 (Glycine max), 3'ss of exon 1
tgtattctttcttatacatgcagcatg-tttctcttatatcctt-atgattggttctttggcttttaactgtcttgtggtccaacattttgaaattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAGTTTAGTGTGATATGGAATTTTCAACAGGTGAAGAATGGCTCCCATGAGT
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-gtctgctgagaaatg-acatatcttggtttttactgtgtctttcatattttaatcataaggaaatatatttttataattccaagttttattggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
upper sequence: Vv18s0001g10540.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G33400.1 (Arabidopsis thaliana), 3'ss of exon 1
tgtattctttcttatacatgcagca--tgtttctcttatatccttatgattggttctttggc--ttttaactgtcttgt--ggtccaacattttgaaattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAGTTTAGTGTGATATGGAATTTTCAACAGGTGAAGAATGGCTCCCATGAGT
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---actactgttgaatcattcatcaattgaaataactttttactaatagttgattcctgactctttttgtctatcttttcttgttgaaaatgtcgatat---atagGTCACGGAGGATGGGAAACAGGAGCGTCATGTGGTAGCTACTGTTGGCAAGTTCAGTGTGATATGGAACTTTCAGCAGGTGAAGAATGGATCTCATGAATMapped 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|71868911|gb|DT017966.1|DT017966EST: CGCATCTCGCTGGAGTAAACAATAAGTTCCGCGGTGCTCAGTTTTCGTGG GTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAG
genomic: CGCATCTCGCTGGAGTAAACAATAAGTTCCGCGGTGCTCAGTTTTCGTGGgtatgtttgc ... aattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattggttctttggcttttaactgtcttgtggtccaacattttgaaattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAGTTTAGTGTGATATGGAATTTTCAACAGGTGAAGAATGGCTCCCATGAGT
ttttaac putative branch site (score: 2)
aacattttgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtattctttcttatacatgcagcatgtttctcttatatccttatgattggttctttggcttttaactgtcttgtggtccaacattttgaaattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAGTTTAGTGTGATATGGAATTTTCAACAGGTGAAGAATGGCTCCCATGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - -acatgca
- - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - - tgattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccaaca