Sequence
atgc intronic sequence ATGC exonic sequence...ttttccttctattccctgacatgcaatcatgtggcagtcctaaattcggccttaattatggtgcatccttctaaatctaatattttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 3'ss of exon 5
ttttccttctattccctgacatgcaatcatg--tggcagtcctaaattcggccttaattatggtgcatccttctaaatctaatat-tttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
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--tgcaaatgaagttcaaacacagatttgttgcctttggtattttatgcgattttcattatgactc-ttggtataattttcttgtattttttccacttttcagGCCATTTGACATCAAAGAGTGATGTCTATAGTTTTGGTGTGGTGCTACTTGAGATGATGTCAGGGCGCAGGTCAATGGACAAGAACCGCCCAAATGGTGA
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 5
ttttccttctattccctgacatgcaatca---tgtggcagtcctaaattcggccttaattatggtgcatccttctaaatctaatattttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
| | | | | | | || ||| || | | | | || | | | | | | | | | | | | || | | |||||||| ||||| || |||||||||||||| || ||||| |||||||| || ||||| ||| || | ||||| || || |||||||| ||||| || || |||||
--ctaccttgctctcttaagattcaaacacccttttactctactgtttacacatctggtctttgcttgacatgc-acttttgtctttctgttccacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTGAGATGATGTCAGGGCGCAGGTCGATGGACAAGAACCGCCCGAACGGGGA
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G02730.1 (Glycine max), 3'ss of exon 4
ttttccttctattccctgacatgcaatcatgtggcagtc----ctaaattcggccttaattatggtgcatccttctaaatctaatattttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
| | ||| | | | || ||| ||| || ||| || | || | | | || | || || | | | | |||| || ||||| || ||||||||||| |||||||||||||||||||| ||||||||| |||| || ||||| || |||| ||| ||| | |||
--tatgatttatgcttcaatgttgcatatggtgctagtttctactccattgggtcgggatctttggagttgctaattaagaagatgcatgttgt--tgtcacagGACACCTTACTTCCAAGAGTGATGTCTATAGCTTTGGGGTGGTTCTACTTGAAATGCTGACAGGAAGAAGAGCCGTGGATCAAAGAGTTCCTAGGAAGGA
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G02470.1 (Glycine max), 3'ss of exon 5
---ttttccttctattccctg-acatgcaat-catgtggcagtcctaaattcggccttaat-tatggtgcatccttctaaatctaatattttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
|| |||| || | | || | || || | | | | ||| ||| | ||| | | || | || || | | || | |||| || ||||| || ||||||||||| |||||||||||||||||||| ||||||||| |||| || ||| | ||||||| ||| | |||| |||
gatttaagcttcaatgttttatatatatggtgcaagtttctactcca---ttggctggaatctttggggttgttatttaga---aagatgtatgttgttgtcacagGACACCTTACTTCCAAGAGTGATGTCTATAGCTTTGGGGTGGTTCTACTTGAAATGCTGACAGGAAGAAAAGCCATGGATCAAAGAAGGCCAAGGAAGGA
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G02480.1 (Glycine max), 3'ss of exon 4
ttttccttctattccctgacatgcaat-catgtggcagtcctaaattcggccttaatt----atggtgcatccttctaaatctaatattttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
| || || | | |||| ||| || | | |||| | | | || || | || | | | | || | | | | | |||| || ||||| || ||||||||||| |||||||||||||||||||| ||||||||| | || || ||||| || |||| ||| || | |||
---gcattagatcgacatggaaacaatacatatgcatgacttaaacttgaatattgttgcatatattatatatatatgatcatgatgtatgttgt--tgtaacagGACACCTTACTTCCAAGAGTGATGTCTATAGCTTTGGGGTGGTTCTACTTGAAATGCTAACAGGAAGAAGAGCCGTGGAGGAAAGAATGCCTAGGAAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcggccttaattatggtgcatccttctaaatctaatattttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
tattttccatcttttt CT-rich tract
ttctaaatctaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttccttctattccctgacatgcaatcatgtggcagtcctaaattcggccttaattatggtgcatccttctaaatctaatattttccatcttttttcagGGCATCTTACGTCAAAGAGTGATGTTTATAGCTTTGGGGTGGTTCTCCTTGAAATGTTGACTGGGCGAAGATCCATGGACAAAAACCGTCCAAATGGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- -tccttct
- - - - - - -ccctgac
- - - - - - - - - - - gcaatca
- - - - - - - - - - - - - - - - ggcagtc