Sequence
atgc intronic sequence ATGC exonic sequence...tatgtgtgtgtgtgtgtgtgtgttaaacttaaatttgttggtgttttacttaaatttattgatgttttattggttggtaaaatggtttttcaccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g03260.1 (Oryza sativa), 3'ss of exon 6
tatgtgtgtgtgtgtgtgtgtgttaaacttaaatttgttggtgttttacttaaatttattgatgttttattggttggtaa--aatggtttttcaccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT
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---------gtaagactacaaaatacttgtatatttttctgtacttatctttctaccagc-attttctaatagctcatcctcaataattgctaa--ttgcagATTATTGGTGAGATTTCTGTATCTGGCGCAACATACAAATCCATGGAGTTTGTTGGATCAACTGTGGAAAGTCTAAAT
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G370852_T03 (Zea mays), 3'ss of exon 7
tatgtgtgtgtgtgtgtgtgtgttaaacttaa--atttgttggtgttttacttaaatttattgatgttttattggttggtaaaatggtttttcaccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT
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---gtaagcttacaagc-tgtgttatgtttgttccttcccttaggatctacctgtaaccat-gacttcttatt--cttgttaatcggta------cttacagATTATTGGTGAGATTTCAGTATCTGGTGCAACCTACAAATCGATGGAGTTTGTTGGATCAACTGTAGAAAGTCTAACC
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G40570.1 (Glycine max), 3'ss of exon 7
--------------------------tatgtgt-gtgtgtgt-gtgtgtgtta---aacttaaatttgttggtgttttacttaaatt---tattgatgttttattggttggtaaaatggtttttcaccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT
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gtaagttccttgattctgaacttttgtttctgttggacatatcataggcattaggtgaccgtgattgcttgctcattttcatgcagcaaatataaaaattacatccttacatgaatgaatggtttaccttacagATTATTGGTGAAATAACTGTGGCTGGGGCAACATATAAATCGATGGAGTTTGTTGGTACAACCGTTGAAAGTTTAACT
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 7
-----------------------------tatgtgtgtgtgtgtgtgtgtgttaa---acttaaatttgttggtgttttacttaaatt---tattgatgttttattggttggtaaaatggtttttcaccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT
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agtaagtgccttgattctgtacttttgtttctgttggacatagcatagccatcaggtgactatgattgtttgctcattttcatgcagcaaatataaaaattacatccttacatgaatggatggtttaccttacaGATTATTGGTGAAATAACTGTGGCTGGTGCAACATATAAATCGATGGAGTTTGTCGGTACAACTGTTGAAAGTTTAAC-Mapped 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|110688159|gb|EE066391.1|EE066391EST: TGGATGGAGAAATGCCTGATTACTTGCTCGCAAAGGATTTGATTTTGCAG ATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTT
genomic: TGGATGGAGAAATGCCTGATTACTTGCTCGCAAAGGATTTGATTTTGCAGgtaagtttaa ... caccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacttaaatttattgatgttttattggttggtaaaatggtttttcaccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT
tattgat putative branch site (score: 3)
tttttcacctt putative PPT
taaatttattgatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgtgtgtgtgtgtgtgtgtgttaaacttaaatttgttggtgttttacttaaatttattgatgttttattggttggtaaaatggtttttcaccttgcagATTATTGGTGAAATATCAGTTTCTGGGGCAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- -gtgtgtg
- - - - - - - - - - - - -aacttaaa
- - - - - - - - - - - - - - - - - - gttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtaaaa