Sequence
atgc intronic sequence ATGC exonic sequence...agtactttgcaggccttatcttcaaatttacatgtagtggatagaatatctcagattggtatttgctggtttttttgacagatgattccttgtcttccagAGTTTTGGGCAGCATGGGAGGGAGCTCATTACATCTGAACTTGCATTGCGGGTCCTATCAGTGTTGAGTGAAGAACAGTTTCTACCCAACATGGATCCGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0122g01410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g02710.2 (Oryza sativa), 3'ss of exon 3
agtactttgcaggccttatcttca-aatttacatgtagtggatagaatatctcagattggtatttgctggtttttttgacagat-gattccttgtcttccagAGTTTTGGGCAGCATGGGAGGGAGCTCATTACATCTGAACTTGCATTGCGGGTCCTATCAGTGTTGAGTGAAGAACAGTTTCTACCCAACATGGATCCGA
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agcaaaacaaaaccaactttttgataatttttacacattggcttgtaaatt--aaattattgatgtcttgcggttttgacagaaaggttcattgtcttccagAGCTTTGGGCAGCATGGCAGAGAGCTTATCACTTCTGAAGTTGCATTAAACCTCCTCTATATTTTGACCGAGAAGCGGAAAATTGCTGGTGTCGATCTAT
upper sequence: Vv18s0122g01410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G02070.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------------------------agtact-ttgcaggccttatcttcaaatttacatgtagtggatagaatatctcagattggtatttgctggtttttttgacagatgattccttgtcttccagAGTTTTGGGCAGCATGGGAGGGAGCTCATTACATCTGAACTTGCATTGCGGGTCCTATCAGTGTTGAGTGAAGAACAGTTTCTACCCAACATGGATCCGA
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gtaagttttcttcattcatttgtgttaatgataagaaaaggggaaaaattgtatgtaagaaaagggggaaaattatgataatataattatgtataggcattcttataagagaaagttataatttggcatgtagtggatagt-tatctcaaattggttatt-ctggtttttttgacagatgattccttgtcttccagAGTTTTGGGCAGCATGGAAGAGAGCTGATTACCACAGAACTTGCTTTAAGGATTTTGTCTATCTTAAGTGAAGAAAAAATTCTACCCAGCATGGATCAAG
upper sequence: Vv18s0122g01410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G42320.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------agtactttg-caggccttatcttcaaattta-catgtagtg----------gatagaatatctc---agattggtatttgctggtttttttgacagatgattccttgtcttccagAGTTTTGGGCAGCATGGGAGGGAGCTCATTACATCTGAACTTGCATTGCGGGTCCTATCAGTGTTGAGTGAAGAACAGTTTCTACCCAACATGGATCCGA
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gtaagttcccttcacagctctgtctaagctattcacaggaatatcaaataaattgacaaatcccgtcttctggtttaacttgtaatacttttttataggtgaagtttcttcatagttttggtaatacctgtttttttgacagatgattccttttcttccagACTTTTGGTCAGCATGGGAGAGAGCTTATCACCTCTGAACTTGCTTTTCGGATTTTGTCAATTTTGAGCGAAGAACAGTTCTTACCAAATAAAAACGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatctcagattggtatttgctggtttttttgacagatgattccttgtcttccagAGTTTTGGGCAGCATGGGAGGGAGCTCATTACATCTGAACTTGCATTGCGGGTCCTATCAGTGTTGAGTGAAGAACAGTTTCTACCCAACATGGATCCGA
ttttgac putative branch site (score: 3)
ttccttgtcttcc putative PPT
tttttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtactttgcaggccttatcttcaaatttacatgtagtggatagaatatctcagattggtatttgctggtttttttgacagatgattccttgtcttccagAGTTTTGGGCAGCATGGGAGGGAGCTCATTACATCTGAACTTGCATTGCGGGTCCTATCAGTGTTGAGTGAAGAACAGTTTCTACCCAACATGGATCCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - gcaggcc
- - - - - - - - - - - - - - - catgtag
- - - - - - - - - - - - - - - - - - -tggatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgattcc