Sequence
atgc intronic sequence ATGC exonic sequence...tgagtaaccattggaaacttttgtatccaaagtctcttattaaaaggaatatttattatggaatttagaactcatacatttttctttttaatttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGACATATGGTTGTCAAATGAATATTAATGATATGGAGATTGTCCTCTCTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os11g38030.1 (Oryza sativa), 3'ss of exon 1
----tgagtaaccattggaaacttttgtatccaaagtctcttattaaaaggaatatttattatggaattta--gaactcatacatttttctttttaatttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGACATATGGTTGTCAAATGAATATTAATGATATGGAGATTGTCCTCTCTATC
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tttcgttgttccaatttactatgcttacttcatacttctcttttctga-----ttttgactgcaagctttgctgaccccatgc-tttgtttttttggtttgtctagTTTAGAGTCTGGTCCGGTGACAGCAAGCAAGGGTCGCATTTACCATGAGACATATGGGTGCCAAATGAATGTAAACGACATGGAGATCGTGCTTTCTATC
upper sequence: Vv04s0023g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G37500.1 (Glycine max), 3'ss of exon 2
tgagtaaccattggaaacttttgtatccaaagtctcttattaaaagga--atatttattatggaatttagaactcatacattt-ttctttttaatttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGACATATGGTTGTCAAATGAATATTAATGATATGGAGATTGTCCTCTCTATC
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--tgcaga-attgcaagttttagataggatagagtagggtttaggggatgaaatctatttactcgttatttgtttatttatttatttttatttgtgcgggtagCCTTGTACCAGATACTGAAGTTCCTCCCACTGGTCGAATATATCATGAGACTTATGGATGTCAAATGAATGTTAATGATATGGAGATTGTTCTGTCTATA
upper sequence: Vv04s0023g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G07790.1 (Glycine max), 3'ss of exon 2
tgagtaaccattggaaacttttgtatccaaagtctcttattaaaaggaatatttattatggaatttagaactcatacattt-ttctttttaatttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGACATATGGTTGTCAAATGAATATTAATGATATGGAGATTGTCCTCTCTATC
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-------gttttagataggatagagt----ggggtttaattaggaatgaaatctattt----actcgttatttgtttatttatttttatttgttcgggtagCTTTGTGCCAGATACTGAAGTTCCTCCCACTGGTCGAATATATCATGAGACTTATGGATGTCAAATGAATGTTAATGATATGGAGATTGTTCTGTCTATAMapped 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|352769579|gb|FQ468507.1|FQ468507EST: CACTCCTTCATTGCTCAAGCCGCTGTCGCCACTTCCGAAGTGCAGCCCGA CCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGAC
genomic: CACTCCTTCATTGCTCAAGCCGCTGTCGCCACTTCCGAAGTGCAGCCCGAgtgagttaat ... atttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGAC
EST:
gi|110698103|gb|EE075729.1|EE075729EST: CACTCCTTCATTGCTCAAGCCGCTGTCGCCACTTCCGAAGTGCAGCCCGA CCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGAC
genomic: CACTCCTTCATTGCTCAAGCCGCTGTCGCCACTTCCGAAGTGCAGCCCGAgtgagttaat ... atttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaatatttattatggaatttagaactcatacatttttctttttaatttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGACATATGGTTGTCAAATGAATATTAATGATATGGAGATTGTCCTCTCTATC
ttttaat putative branch site (score: 3)
tttttctttttaattt CT-rich tract
tcatacatttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagtaaccattggaaacttttgtatccaaagtctcttattaaaaggaatatttattatggaatttagaactcatacatttttctttttaatttgtctagCCCTGTGTCAGCTTCCGAAATTCTTCCAAGAGGTCGTATTTATCATGAGACATATGGTTGTCAAATGAATATTAATGATATGGAGATTGTCCTCTCTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- -gtaacca
- - - - - - - - - - - - atccaaa
- - - - - - - - - - - - - - - - - - - - - aaaggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaactca