Sequence
atgc intronic sequence ATGC exonic sequence...gggttgtgtctaggtgtatgatatgatatagtggttaaaggtgtttaaatgatctactgtttataccatactggcctgatatacagaacacattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTTCCAACACTATCAGGAAATATATATGTTCTTAATGGCAAGGATGGATTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 9
--gggttg-tgtctaggtgtatgatatgatatagtggttaaaggtgtttaaatgatctactgtttataccatactggcctgatatacagaacacattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTTCCAACACTATCAGGAAATATATATGTTCTTAATGGCAAGGATGGATTAC
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tagtattactatatgctttcactgtcttcactggtgcattcagttttatttgggctatgcttttcataccct-ctgatttgccat-tgtcatatgatga-cagCGCCCTACTGTTGGTGATGTTAATGGAGATGGTCGCACTGAAGTTGTGGTCCCAACCGTGTCAGGAAACATATATGTTCTTAGTGGAAAGGATGGCTCAA
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G479744_T01 (Zea mays), 3'ss of exon 5
gggttgtgtctaggtgtatgatatgatatagtggttaaaggtgtt----taaatgatctactgtttataccatactggcctgatatacagaacacattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTTCCAACACTATCAGGAAATATATATGTTCTTAATGGCAAGGATGGATTAC
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--tatactttcaaccccacaatttcctttactttatatttcttttgctattacttggccatggtttttacaatgc-agtctgattattatcatatgatga-cagAGACCTACTGTTGGTGATGTCAATGGAGATGGCCACACTGATGTTGTGGTCCCAACTGTGTCAGGAAACATCTATGTTCTTAGTGGAAAGGATGGGTCAA
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 11
--gggttgtgtctaggtgtatgatatgatatagtggttaaaggtgtttaaatgatctactgtttataccatactggcctgata-tacagaacacattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTTCCAACACTATCAGGAAATATATATGTTCTTAATGGCAAGGATGGATTAC
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taacagtctcactccttccacacatttgcattgcattagaaaccatttaggcgattca---tttgtccaaagtttgattgagaatgtcgctcattttccttagGGTCCTACTGTTGGTGATGTTGATGGGGATGGCCATACTGAGCTTGTTGTGCCAACACTATCTGGGAAGATTCATGTTCTTGATGGCAGGGATGGGTCAT
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G09090.1 (Arabidopsis thaliana), 3'ss of exon 9
gggttgtgtctaggtgtatgatatgatatagtggttaaaggtgtttaaatgatctactgtttataccatactggcctgata-tacagaacacattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTTCCAACACTATCAGGAAATATATATGTTCTTAATGGCAAGGATGGATTAC
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-gtccctgcgtaagaccaaaattatttaccatgtaacattgtaacctgtctctgaattgatcacttcacgattattgattgctgccaatcttctcttacagGGTCCTTCTATAGGCGATGTTGATGGTGACGGACACACGGAGGTTGTGGTTCCTACATCATCAGGAAACATATACGTTCTTAGTGGCAAGGATGGTTCTAMapped 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|351053644|gb|FQ440153.1|FQ440153EST: CACATGTTAAGAGTCTTGTTCCACAG GCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTT
genomic: CACATGTTAAGAGTCTTGTTCCACAGgtaagttctc ... cattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatgatctactgtttataccatactggcctgatatacagaacacattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTTCCAACACTATCAGGAAATATATATGTTCTTAATGGCAAGGATGGATTAC
gcctgat putative branch site (score: 4)
cattcctc putative PPT
tgtttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggttgtgtctaggtgtatgatatgatatagtggttaaaggtgtttaaatgatctactgtttataccatactggcctgatatacagaacacattcctcagGCTCCTACGATTGGCGATGTTGATGGGGATGGGCACACCGATGTTGTGGTTCCAACACTATCAGGAAATATATATGTTCTTAATGGCAAGGATGGATTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
gggttgt
- - - - - - -gtgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctactgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atacaga