Sequence
atgc intronic sequence ATGC exonic sequence...cttcaagagggttaataatgataaaaatctaatcgattccagtcagtcctgaaacttttttggatgtttttttaactcccttttttttgaatgtttgcagCACAACATTCATTTTCTTCAAGAAGTTCTCCAAAATAGGAGGTCAAATCTCCTGGAGTGGTGCATCATTTACTTGATATTTATTGAAAATGTAATCTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g00520.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g55860.1 (Oryza sativa), 3'ss of exon 6
cttcaagagggttaataatgataaaaatctaatcgattc-cagtcagtcctgaaacttttttggatgtttttttaactcccttttttttgaatgtttgcagCACAACATTCATTTTCTTCAAGAAGTTCTCCAAAATAGGAGGTCAAATCTCCTGGAGTGGTGCATCATTTACTTGATATTTATTGAAAATGTAATCTCAA
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--gtaagttcttcgatttgtgttcattttcagtgtattagctgatttttttaaaaaattttgagttcccattcgtgcttacactttatt--attgcaacagCACAACATTCATTTTCTTCAAGAAGTTCTCCAGAATAGAAGATCAGATTTGCTGGAGTGGGGTGTCATTATACTGCTGATTATCGAGATTGTCATCTCAT
upper sequence: Vv01s0010g00520.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G06630.1 (Glycine max), 3'ss of exon 6
------cttcaagagggttaa--taatgataaaaatctaatcgattccagtcagtcctgaaacttttttggatgtttttttaactcccttttttttgaatgtttgcagCACAACATTCATTTTCTTCAAGAAGTTCTCCAAAATAGGAGGTCAAATCTCCTGGAGTGGTGCATCATTTACTTGATATTTATTGAAAATGTAATCTCAA
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cattttcccctacatatttaacttagtagttgaggt-tggtcagtatcttcaaatgatgttgtccaattaaggcttatttca-------tcgatttggttgtttgcagCACAATATTCATTTTCTCCAAGAAGTTCTCCAGAACAGGAAATCAGATTTCTTGGAATGGTGCATTATTGGTCTATTGACTATTGAAAATGTTCTATCCT
upper sequence: Vv01s0010g00520.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G12560.1 (Glycine max), 3'ss of exon 6
cttcaagagggttaa--taatgataaaaatctaatcgattccagtcagtcctgaaacttttttggatgtttttttaactcccttttttttgaatgtttgcagCACAACATTCATTTTCTTCAAGAAGTTCTCCAAAATAGGAGGTCAAATCTCCTGGAGTGGTGCATCATTTACTTGATATTTATTGAAAATGTAATCTCAA
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cccctacatatttaacttagtagttgaggttgaggttgttcattatcttcaaatgatgttgtccaattaaggctta--tttcattgatttggttgtttgcagCACAATATTCATTTCCTACAAGAAGTTCTCCAGAACAGGAAATCAGATTTCTTGGAATGGTGCATTATTGGTCTATTGACTATTGAAAATGTTCTATCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcctgaaacttttttggatgtttttttaactcccttttttttgaatgtttgcagCACAACATTCATTTTCTTCAAGAAGTTCTCCAAAATAGGAGGTCAAATCTCCTGGAGTGGTGCATCATTTACTTGATATTTATTGAAAATGTAATCTCAA
ttttaac putative branch site (score: 2)
ttttttttgaatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcaagagggttaataatgataaaaatctaatcgattccagtcagtcctgaaacttttttggatgtttttttaactcccttttttttgaatgtttgcagCACAACATTCATTTTCTTCAAGAAGTTCTCCAAAATAGGAGGTCAAATCTCCTGGAGTGGTGCATCATTTACTTGATATTTATTGAAAATGTAATCTCAA
- - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - ccagtca
- - - - - - - - - - - - - - - - - - - - - - - - ctgaaac