Sequence
atgc intronic sequence ATGC exonic sequence...ggcattgctctttctttctatgtatgaatctgcaaccttcatttaatttttcaagaaaagggtaaaaatttgatgtgtctgtattatggtttaattgcagTGCTCCAGCTGCAGCCAAAAGAAGAGGTGGCTCGGGGGGTCTAAACAAAGTCTGTGGGGTTTCAACTGAACTTCAGGCTGTTGTTGGCGAGCCAACCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os08g39310.1 (Oryza sativa), 3'ss of exon 1
-ggcattgctctttctttctatgtatgaatctgcaaccttcatttaatttttcaagaaaagggtaaaaatttgatgtgtctgta-ttatggtttaattgcagTGCTCCAGCTGCAGCCAAAAGAAGAGGTGGCTCGGGGGGTCTAAACAAAGTCTGTGGGGTTTCAACTGAACTTCAGGCTGTTGTTGGCGAGCCAACCATG
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agagataaatgtgcccttatcttgctaaat--gctagcatattttactgctcggtctattcattgaaccttttttttttccttggtcgtgtttacgaaccagTGCAAGTACTGGAGTAAAGAGAAGAGGTGGTCCAGGTGGGCTAAACAAAGTCTGTGGTGTTTCTCCTGAGCTGCAAGCTATTGTTGGTGAACCAACCATG
upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G39530.1 (Glycine max), 3'ss of exon 1
ggcattgctctttctttctatgtatgaatctgcaaccttcatttaatttttcaagaaaagggtaaaaatttg-atgtgtctgtattatggtttaattgc-agTGCTCCAGCTGCAGCCAAAAGAAGAGGTGGCTCGGGGGGTCTAAACAAAGTCTGTGGGGTTTCAACTGAACTTCAGGCTGTTGTTGGCGAGCCAACCATG
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-tttttctccaatctgtctctattctaattc-taataagagtgacgttatggaattaacgtatgagatggtgtgttggtattttttatgaatgatttaccagTGTTCAAACTGGAGCCAAAAGAAGAGGTGGCGCTGGTGGTCTAAACAAAGTTTGTGGTGTTTCTCCTGAACTTCAGGCAGTTGTTGGTGAGCCGGCAATG
upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G01230.1 (Glycine max), 3'ss of exon 1
-----ggcattgctctttctttctatgtatgaatctgca-accttcatttaatttttcaagaaaagggtaaaaatttgatgtgtctgtattatggtttaattgcagTGCTCCAGCTGCAGCCAAAAGAAGAGGTGGCTCGGGGGGTCTAAACAAAGTCTGTGGGGTTTCAACTGAACTTCAGGCTGTTGTTGGCGAGCCAACCATG
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tgcatgattttctccaatctgtctctattgtaattagaatggcgtgatggaattaacatatgagatggtgtg---ttggtgt-tctttataaatgatttac--cagTGTGCAAACTGGAAGCAAAAGAAGAGGTGGTGCTGGTGGTCTAAACAAAGTTTGTGGTGTTTCTCCTGAACTTCAGGCGGTTGTTGGTGAGCCGGCAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttcaagaaaagggtaaaaatttgatgtgtctgtattatggtttaattgcagTGCTCCAGCTGCAGCCAAAAGAAGAGGTGGCTCGGGGGGTCTAAACAAAGTCTGTGGGGTTTCAACTGAACTTCAGGCTGTTGTTGGCGAGCCAACCATG
gtttaat putative branch site (score: 4)
tattatggtttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggcattgctctttctttctatgtatgaatctgcaaccttcatttaatttttcaagaaaagggtaaaaatttgatgtgtctgtattatggtttaattgcagTGCTCCAGCTGCAGCCAAAAGAAGAGGTGGCTCGGGGGGTCTAAACAAAGTCTGTGGGGTTTCAACTGAACTTCAGGCTGTTGTTGGCGAGCCAACCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- cattgct
- - - - - - - - -ctatgta
- - - - - - - - - - - - - - - - caacctt
- - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtctgt