Sequence
atgc intronic sequence ATGC exonic sequence...gtctattaataaacccccatatgatcaaagatacatgaagagaagttaacagaaagtaaatctccttatatggcatagcttgttttacttgaatttgcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g06010.1 (Oryza sativa), 3'ss of exon 7
--------gtctattaataaacccccatatgatcaaag-atacatgaagagaagttaacagaaagtaaatctccttatatggcatagcttgttttac--ttgaattt----gcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
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gtatggacatcttttt-tgctctatcagttgattatagcatagatgaaggcaca--aaaattatataattcttgtagttggaaaaatctacttacactgttgattattcaagcagATTCTTGGCAATGAGAATGGTCCTGTTTGGAAAGACTATTTTGAAGGTGGTGCAACTTGGGCATTTGATGTTGGCTCTCAGTCTATGACATGTCCAATCA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G31460.1 (Glycine max), 3'ss of exon 7
-gtctattaataaacccccatatgatcaaagatacatgaagagaagttaacagaaagtaaatctccttatatggcatagcttgttttac-ttgaatttgcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
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tagctcaaatcaaatatctactaaaaccatgatgca--ataaatatttgaggaattgttaataatgaaagaaatgatgatccctttttcattaaatatgcagATTATTAATAAGGAAGGTGGGCTGCTTTTGAAAGACAACTTTGAGGGTGGGGCTACATGGGCATATGAAGTTGGCTCACAATCAATGGTTTGCCCTATTG
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G38930.1 (Glycine max), 3'ss of exon 7
gtctattaataaacccccatatgatcaaagatacatgaagagaagttaacagaaagtaaatctccttata-tggcatagcttgtt---ttacttgaatttgcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
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--atacta-tgagggactataaagaagaaattgta-gtagataatttttttatttgaggaattatttataatgaaaaaaaatgatcccttcattaaatatgcagATTATTAATAAGGAAGGTGGGCTGCTTTTGAAAGACAACTTTGAGGGTGGGGCTACGTGGGCATATGAAGTTGGCTCACTATCAATGGTTTGCCCCATTG
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G18290.1 (Glycine max), 3'ss of exon 8
-gtctattaataaacccccatatgatcaaa---gatacatgaagagaagttaacagaaagtaaatctccttatatggcatagcttgttttacttgaatttgcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
| || || | | ||| || | ||| | | | || | | || | || | || || ||| | |||| ||||| ||||||| ||| ||| ||||||||| ||| || ||||| |||||||||||||| || |||||||||| ||| |||||||| || || ||||| || || || |
aatataaaaaatagtgaatagctgacataatgtgttactttatggaaatattaatgagggggaaaatactgattgttcat----ttttttttctgaatatgcagATAGTTAGTAAAGAAGGTGGATTGCTATTAAAAGATAACTTTGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G09990.1 (Glycine max), 3'ss of exon 2
--------gtctattaataaacc-cccatatgatcaaagatacatgaagagaagttaacagaaagtaaatctccttatatggcatagcttgttttacttgaatttgcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
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gcatgaatatataagagtgaataactgacataatgttttactt-tatggaaatattaatgagggggaaa-------atactg-attgttcattttttctgaatatgcagATTGTCAGTAAAGAAGGTGGATTGCTATTAAAAGATAACTTTGAGGGAGGGGCTACATGGGCATATGAGGTTGGTGCACAATCAATGGTTTGTCCAATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaacagaaagtaaatctccttatatggcatagcttgttttacttgaatttgcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
agttaac putative branch site (score: 3)
ttttacttgaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctattaataaacccccatatgatcaaagatacatgaagagaagttaacagaaagtaaatctccttatatggcatagcttgttttacttgaatttgcagATTATTAATAAGGAAGGTGGACTGCACTTGAAAGACAACTTTGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - -cccccat
- - - - - - - - - - - - - aaagata
- - - - - - - - - - - - - - - - - - -aagagaa
- - - - - - - - - - - - - - - - - - - - - - - -aacagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catagct