Sequence
atgc intronic sequence ATGC exonic sequencegtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttagagttgtattcatttcatatggaccatcctgttttttgaagcatgccagttaattgtagtcctgttatttttctctgagtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g43150.1 (Oryza sativa), 3'ss of exon 5
gtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttagagttgtattcatttcatatggaccatcc--tgttttttg-aagcatgccagttaattgtagtcc---tgttatttttctctgagtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
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---------------------------------------------------------------------------------------------ctctctttttttttcatatatgccatttgttattatttatgcaaatatccatttat-gtattccagatgatcccttattccctcatggtgtttttatt-cagAATGTCAAGACATTTAAAGATGTCAAAGGGTGTGATGACGCAAAGAAAGAACTCGAGGAGGTAGTTGAGTATCTAAAAAACCCTTCAAAGTTTACTCGGC
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G004040_T01 (Zea mays), 3'ss of exon 5
gtagatatctga-tgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttagagttgtattcatttcatatggaccatcctgttttttga----agcatgccagttaattgtagtcctgttatttttctctgagtagttgcct-ttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
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----gtatctgagtacgcttcataaagtacttggtgcaagaagagtatcttggtccattttgggt-tactacatgaactttattagtgttttccttctgcac-catactgtctttattg--ctgttgtttgacagtaatgtgatttctcagtacagaaaacaaatacatattcaaatgcttctatgctgtttcagAATGTCAAGACATTTAAAGATGTCAAAGGTTGTGATGATGCAAAAAAGGAACTTGAGGAAGTAGTTGAGTATCTCAAGAACCCTTCAAAGTTCACTCGCC
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G156069_T01 (Zea mays), 3'ss of exon 5
gtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttagagttgtatt-catttcatatggaccatcctgttttttgaagcatgccagttaattgtagtcctgt-tatttttctctgagtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
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----gtatctgat--tacgcttcataaaatacttgatacaagagtatcttggtccactttgggt-tactacaaaaacattattagtgtttttctttcgcacaatactgtcttctggttgtc-tgttagtaatgtgatttctcggtacagaaaacaaatacatattcaaatgataattctatggttttacagAATGTCAAGACATTTAAAGATGTCAAAGGTTGTGATGATGCAAAAAAGGAACTTGAGGAGGTAGTTGAGTATCTCAAGAACCCTTCAAAGTTCACTCGCC
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G08160.1 (Glycine max), 3'ss of exon 5
gtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttagagttgtattcatttcatatggaccatcctgttttttgaagcatgccagttaattgtagtcctgttatttttctctga-gtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
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----------------------------------------------------------------------------------------cttagccttgtgtgtagaatatacagtaaaccaaaagttcttctacgccttatgtgctcac--ttttcttatctttctctatcacactttctttccttgcagAATGTAAAAACCTTTAAGGATGTGAAAGGTTGTGATGATGCAAAGCAAGAACTTGAGGAAGTTGTGGAGTACCTAAAAAATCCATCTAAGTTTACACGCC
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G29780.1 (Glycine max), 3'ss of exon 5
gtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttagagttgtattcatttcatatggaccatcctgttttttgaagcatgccagttaattgtagtcctgttatttttctctga-gtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
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-----------------------------------------------------------------------------------------ttagacttgtgtgtagaatatacagtaaatcaaaagttcttccacatcttatgtgttctcttttct-taatctttctctatcacactttctttccttgcagAATGTAAAAACCTTTAAGGATGTGAAAGGTTGTGATGATGCAAAGCAAGAACTTGAGGAAGTTGTGGAGTACCTAAAAAATCCATCTAAGTTTACACGCC
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G13140.1 (Glycine max), 3'ss of exon 5
gtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatt-tagagttgtattcatttcatatggaccatcctgttttttgaagcatgccagttaattgtagtcctgttatttttctctgagtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
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------------------------------------------------------------------------------------ctgattacacacacacactcaca-catacagagagaccaattgac---aacaaatcagaaaattatga--caaacaaccttatataagctctctttcctcttgcagAATGTTAAAACATTTAAAGATGTGAAAGGTTGTGACGATGCAAAACAAGAACTTGAGGAAGTTGTGGAATACCTGAAAAATCCAGCTAAATTTACCCGCC
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G53170.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttag-agttgtattcattt---catatggaccatcctgttttttgaagcatgccagttaattgtagtcctgttatttttctctgagtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
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---------------------------------------------------------------------------------------attcaatagttctgttcgtgttgcccttgaagccgatatatttataagagc-tgct--ccaattgtg---tcatttcctaacaattatcaagtttacttgccgcagAATGTCAAAACATTTAAGGACGTAAAGGGTTGTGATGATGCAAAACAAGAGCTCGAAGAGGTAGTTGAATATCTCAAAAATCCATCAAAGTTTACCCGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgccagttaattgtagtcctgttatttttctctgagtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
agttaat putative branch site (score: 4)
ttgccttt putative PPT
tgttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatatctgatgttacgtgttttgtattatatgttttaagagtgtttctggagatttcaagtctattgagcaagttgtgcaagtgatttagagttgtattcatttcatatggaccatcctgttttttgaagcatgccagttaattgtagtcctgttatttttctctgagtagttgcctttgctgcagAATGTTAAGACATTTAAGGATGTGAAAGGCTGTGATGATGCAAAACAGGAGCTTGAGGAAGTAGTGGAGTACCTCAAAAACCCTGCAAAGTTTACTAGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG