Sequence
atgc intronic sequence ATGC exonic sequencegtatggttacagctacttcatttcaatccaataagttcaatatttctttttgattaactatcatttctgatgttgaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g10400.2 (Oryza sativa), 3'ss of exon 8
gtatggttacagctacttcatttcaatccaataagttcaatatttctttttgattaactatcatttctgatgttgaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
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-----------------------gtatgttctgatcacattagtcctttttacctagtcatttgtttta----tgcatacttatg-gtcatatctaaatcttatctgtttaataattccttttac--agAAATTTCATGATTCAAGGAGGTGATCCAACTGGCACAGGAAGTGGAGGGGAGTCCATATGGGGTAAACCTTTCAAGGATGAACTGAATTCAAAACTTATA
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G007486_T02 (Zea mays), 3'ss of exon 8
gtatggttacagctacttcatttcaatccaataagttcaatatttctttttgattaactatcatttctgatgttgaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
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---------------gtatgttgtgatcacattagtcc----tttttttttca--aaatgttcctataattcttatggtgctat---ctaattct--cgtcgttatttaccattccc---tttctacagAAACTTCATGATCCAAGGCGGCGATCCAACTGGCACAGGAAGTGGAGGAGAGTCCATATGGGGTAAACCGTTCAAGGACGAGCCAAACTCAAAGCTGCTA
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G05130.1 (Glycine max), 3'ss of exon 8
gtatggttacagctacttcatttcaatccaataagttcaatatttctttttgattaactatcatttctgatgttgaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
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----------------------------------gtataatgacatcctctg---------catctttccccctggag-----taaattaaaccttagatttattgtt-ttataatccattttatgcagGAATTTTATGATACAGGGCGGTGATCCTACTGGTACTGGTCGAGGAGGTGAATCTATTTGGGGAAAGCCTTTTAAAGATGAACTTAACTCCAAATTAGTT
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G40170.1 (Glycine max), 3'ss of exon 8
gtatggttacagctacttcatttcaatccaataagttcaatatttctttttgattaactatcatttctgatgttgaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
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----------------------------------gtataatgacatcctct--ttatctttc-tccctggagtaaattaagccatag--atttattgtcttaaaa----------tccatgttatgcagGAATTTTATGATACAGGGCGGTGATCCTACTGGTACCGGTCGAGGAGGTGAATCTATATGGGGAAAGCCTTTTAAAGATGAACTCAACTCCAAATTAATT
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G67530.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatggttacagctacttcatttcaatccaataagttca-atatttctttttgattaactatcatttctgatgttgaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
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----------------------------gtatgcatacatatatgtcttggaaatctgttttgttttaagagtttttatggggc--aattaaacatgatctt--------ttgacctttcttctacaaagGAACTTCATGATTCAAGGGGGCGATCCAACTGGCACAGGAAAAGGAGGTGAATCCATTTGGGGGAAGCCATTCAAAGACGAGCCAAACTCGAAGCTGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
ttctgat putative branch site (score: 3)
ctgttctccacttt putative PPT
agttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggttacagctacttcatttcaatccaataagttcaatatttctttttgattaactatcatttctgatgttgaagagctctgagttatttctgatgttgagagatactgttctccactttgtgtagGAATTTTATGATTCAAGGGGGTGATCCAACTGGCACTGGGAGTGGGGGAGAATCTATATGGGGAAAACCGTTCAAAGATGAGCTGAACTCCAAGTTGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA