Sequence
atgc intronic sequence ATGC exonic sequence...tctgtactaatattccctgagttattgcctctaaactgatttatatctaaaaaaaggtggtttttttccaggattagtagactaatatatgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os10g33275.2 (Oryza sativa), 3'ss of exon 14
-tctgtactaatattccctgagttattgcctctaaactgatttatatctaaaaaaaggtggtttttttccaggattagtagactaatatatgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
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atctcttttccccatttcaacacacttgaatcatatctactttcgtgttccagaacataagtttgcagtatgggttcttacttccatg-atataatttcagGCATATAATTATTATGGAAAGGATCTGGAGATGGTATGTGCTGTCCTATGTGCTGGGCTTTACCCAAATGTCGTTCAGTGCAAAAGACGAGGCAAGAGGA
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G399212_T01 (Zea mays), 3'ss of exon 16
tctgtactaatattccctgagttattgc---ctctaaactgatttatatctaaaaaaaggtggtttttttccagg-attagtagactaatata-tgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
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----aactaa-atctattaagtatttgtgaattttggtgggacataattctctacagtttctaaatagttcagggtggctccttacttccatgctataacttcagGCATATAACCGCTATGGTAATGATCTGGAGATGGTTTGCGCTGTCTTGTGCGCTGGGCTGTACCCAAATGTTGTGCAATGCAAAAGGCGAGGCAAGAGGA
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 16
-------------------------------------------tctgtactaatattccctgagtta---ttgcctctaaactgatt-tatatctaaaaaaag---gtggtttttttcc-----aggattagtagactaat-----------atatgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
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gtaagcccctagccccaattgcttttcttttcaacagaaaaaatacttcccatctttcccccaatttagtttccctctcttctgaaagtaaaagcaagtatagcttatggctaaattctgaataagtactaggagagtagttatgaagcataatttgtctttgcagGCTTACAACCAGTATAGTCATGATTTGGAGATGGTTTGTGCAATTCTTTGTGCTGGGCTCTACCCTAACGTTGTGCAGTGCAAAAGAAGAGGAAAACGGA
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 17
------------------------------------------------tctgtactaatattccctgagttattgcctctaaactgatttatatctaaaaaaag--gtggtttttttcc-----aggattagtagac-------------taatatatgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
| | | | | |||| |||| | | | | | | | | ||| | | ||| || | ||| ||| |||| ||||| ||||||| || || || ||||| ||||| |||||||||| |||||||| |||||||||||||||||||| |||||| | |||||||||||||||||||| || |
gtaagcccctaatcccagttgcttttcttttcaactgaaatactttcccccatcttcccgcccatttagtttccatctcttcttaaagtaaaagcaagtatagcttatggctatattctgaataagtactaggagagtagttatgaagcataatttatgtctttgcagGTTTACAACCAGTATAGTCATGATTTGGAGATGGTTTGTGCAATTCTTTGTGCTGGGCTCTACCCTAATGTTGTTCAGTGCAAAAGAAGAGGAAAACGGA
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 14
--------------tctgtactaatattccctgagttattgcctctaaactgatttatatctaaaaaaaggtggtttttttccaggattagtagactaatatatgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
| || |||||| | | | |||| || || | | | || | ||| | || | ||||| ||| | | | | | || ||||| || || ||||||||| | ||| |||||||| || |||| | || ||||| ||||| |||||||||||| | || |||||||||||||| ||||| |
gtaagcatcaggaacccgtcctaatacttc---aattatattttcgaaccctgataaaatgtgaaactac-tgatcattttc----atttgcaaa-tggtgc-----ttttcagGCATACAACCAATATAGCTACGATATGGAGATGATAAGTGCGGTTCTATGTGCGGGGCTGTACCCAAATGTTGTCCAATGCAAAAGAAGAGGGAAGCGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaaaaaaaggtggtttttttccaggattagtagactaatatatgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
gactaat putative branch site (score: 2)
actaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgtactaatattccctgagttattgcctctaaactgatttatatctaaaaaaaggtggtttttttccaggattagtagactaatatatgtgcttgcagGCCTATAATCAATATAGCAATGATCTGGAGATGGTATGTGCAATCCTTTGTGCTGGGCTCTACCCAAATGTTTTGCAGTGCAAAAGAAGAGGAAAGCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - -tccctga
- - - - - - - - - - - - -tgcctct
- - - - - - - - - - - - - - - - aaactga
- - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa