Sequence
atgc intronic sequence ATGC exonic sequence...tattttggtatgaagtttatcttgttttcccaatttctgagtagaattcagattccatgaatgtaatagacctgcttttatgtggaatttcttttggcagATGTGACGGAGGTTCTTTGTGAACTCGAGCTTACAATAAAGAAAGTGAAGGTATCCACGACCCCTGATGGAAGAGTGATGGACCTCTTCTTCATCACAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g04890.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g39740.1 (Oryza sativa), 3'ss of exon 2
tattttggtatgaagtttatcttgttttcccaatttctgagtagaattcagattccatgaatgtaatagacctgcttttatgtggaatttcttttggcagATGTGACGGAGGTTCTTTGTGAACTCGAGCTTACAATAAAGAAAGTGAAGGTATCCACGACCCCTGATGGAAGAGTGATGGACCTCTTCTTCATCACAGA
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tagcgagctaagccctaaaaaaaatatttaagtgcttccagtgaagatattttactagaaaaaggcctaatttggagctgcttgcttctgtgctttgcagACGTGACACGAGTGCTGTGCGAACTGGAACTCACAATTCGTAGAGTGAAGGTCTCCACCACACCTGATGGGAGAGTGCTGGATCTTTTCTTCATCACAGA
upper sequence: Vv08s0007g04890.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G06630.1 (Glycine max), 3'ss of exon 2
tattttggtatgaagtttatcttgttttcccaa-----tttctgagtagaattcagattccatgaatgtaatagacctgcttttatg-tggaatttcttt---------tggcagATGTGACGGAGGTTCTTTGTGAACTCGAGCTTACAATAAAGAAAGTGAAGGTATCCACGACCCCTGATGGAAGAGTGATGGACCTCTTCTTCATCACAGA
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-----------ggaagttatctggtttttatgagattgttgctctgtgatattgatgttgtgcgaa-attgtagacagaacaaaatgactgaatgtctttataatatggtagCAGATGTCACTGAGGTTCTTTGTGAGCTAGAACTTACTATAAAGAAAGTGAAGGTATCTACTACACCTGATGGCAAAGTGATGGATCTGTTTTTCATCAC---
upper sequence: Vv08s0007g04890.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G20840.1 (Glycine max), 3'ss of exon 2
----tattttggtatgaagtttatcttgttttcccaatttctgagtagaattcagattccatgaatgtaatagacctgcttttatgtggaatttcttttggcagATGTGACGGAGGTTCTTTGTGAACTCGAGCTTACAATAAAGAAAGTGAAGGTATCCACGACCCCTGATGGAAGAGTGATGGACCTCTTCTTCATCACAGA
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gaagttatctgattttatgtgattgttgctctgtgacatt---gatgttgtgtggatttggtagacagaacaaaa-tgactgaatgtcttaataatggtagcagATGTTACTGAGGTTCTTTGTGAGCTAGAACTTACTATAAAGAAAGTGAAGGTATCTACTACACCTGATGGCAAAGTGATAGATCTGTTTTTCATCACAGA
upper sequence: Vv08s0007g04890.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G36840.1 (Arabidopsis thaliana), 3'ss of exon 2
tattttggtatgaagtttatcttgttttcccaatttctgagtagaattcagattccatgaatgtaatagacctgcttttatgtggaatttcttttggcagATGTGACGGAGGTTCTTTGTGAACTCGAGCTTACAATAAAGAAAGTGAAGGTATCCACGACCCCTGATGGAAGAGTGATGGACCTCTTCTTCATCACAGA
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--------------gttagtttgtttctgtttgcttattgattct-tctgaattttgaggtagttgtggccttactgtt--------tctgtattggcagATGTCACAGAGGTTCTTTACAAGCTTGAGATTAACATTGAGAAAGTTAAGATATCGACTACCCCTGATGGAAAAGTGATGGACTTGTTCTTTGTCACAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcagattccatgaatgtaatagacctgcttttatgtggaatttcttttggcagATGTGACGGAGGTTCTTTGTGAACTCGAGCTTACAATAAAGAAAGTGAAGGTATCCACGACCCCTGATGGAAGAGTGATGGACCTCTTCTTCATCACAGA
tttctttt CT-rich tract
aatttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattttggtatgaagtttatcttgttttcccaatttctgagtagaattcagattccatgaatgtaatagacctgcttttatgtggaatttcttttggcagATGTGACGGAGGTTCTTTGTGAACTCGAGCTTACAATAAAGAAAGTGAAGGTATCCACGACCCCTGATGGAAGAGTGATGGACCTCTTCTTCATCACAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - ggtatga
- - - - - - - - - - - - - ttcccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgaa