Sequence
atgc intronic sequence ATGC exonic sequence...agatgttgcgtccatgacaaattaattatgtaattgtaatctagtggactttctgtggatttttctccctaactatttacttaatcatttatttggatagGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g10380.1 (Oryza sativa), 3'ss of exon 1
--agatgttgcgtccatgacaaattaa-ttatgtaattgtaatctagtggactttctgtggatttttctc---cctaactatttacttaatcatttatttggatagGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
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cttcccctaggagttttactgaatcaaaccccatacttctgttctat---gctttctgtggtgatctgtgagatccaactccttattctaatgccattct---tagATATGGAAATGGTACGATAAGTGCTGCTGGTGGTAATGGATGGGGTGGAGGTGGTGGTGGGAGGATATCTCTGGACTGTTACAGCATTCAGCAAGATCTG
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G385413_T01 (Zea mays), 3'ss of exon 1
agatgttgcgtccatg-------acaaattaattatgtaattgtaatctagtggactttctgtggatttttctccctaactatttacttaatcatttatttggatagGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
|| | || || ||||| || || | || |||| || | |||||| | | | ||| ||| ||| ||||||| |||||||| || ||||||| |||||||||||| ||||| |||||||| ||||| ||||| ||||| ||||| ||| ||||| |
-----ttccccccctggaaagacacaaacaaaccccataccctatgctacatttttttgttgtgacttgtgaaatctaactgtcatcatggcatgccattct--tagATCTGGAAATGGCACAATAAGTGCTGCTGGTGGTAATGGATGGGGTGGCGGTGGCGGTGGAAGGATATCTCTGGACTGTTACAGCATTCAACAAGATTTG
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 1
agatgttgcgtccatgacaaattaattatgtaattgtaatctagtggactttctgtggatttttctccctaactattta-cttaatcatttatttggat--agGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
|| || ||| | || |||| || | | || | | | | | || | | || || | ||| || || ||| | |||||||||||||| | || | ||| || ||||| | |||||||||||||| || || |||||||||||||| |||||||| ||||||||||||||| |
---ccatgtgtacattgaaggttttgtatggaactaatacatattatccagtgaattgtgcttgtaacttttcttttcaacttcatttttcggttgagtgtagGAAGGGATATGGTATCATCAATGCTGCTGGTGGAATGGGATGGGGTGGAGGAGGTGGAGGAAGAATATCACTTGATTGTTACAGCATACAAGAAGATTTT
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G41140.1 (Glycine max), 3'ss of exon 1
agatgttgcgtccatgacaaattaattatg------taat---tgtaatctagtggactttctgtg-gatttttctccctaactatttacttaatcatttatttggatagGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
| || || ||| || || | |||| | | ||||||| | | | || | |||||| |||| | | || | || | | ||||||||| ||||| | || ||||| || ||||| | |||||||||||||| || || |||||||||||||| |||||||| |||||||||||||
aagtgccatgtgtatgttgaaggttttgtagggaactaatacatattgtctagtgaattgtgcttgtaacttttcttttcaact--tcattttttggttgagT---GTAGGAAGGGCTATGGTATCATCAGTGCCGCTGGTGGGACGGGATGGGGTGGAGGAGGTGGAGGAAGAATATCACTTGATTGTTACAGCATACAAGAAG-----
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G47020.1 (Arabidopsis thaliana), 3'ss of exon 2
agatgttgcgtccatgacaaattaattatgtaattgtaatcta-gtggactttctgtggatttttctccctaa-ctatttacttaatcatttatttggatagGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
| | | || ||| ||| | | ||| | | || |||| | | |||| | || || | | ||||||| | ||||||||| || || | ||| |||| | ||||| || ||||||||||||||||| || ||||| || || || || ||||| ||||||||||||||||||
-tacggatttgtcgtgg-gaatgtgttaaatcaatgttttacatgttaacttgttagttttgtttcgcttcaatctgtctcacctatcatttgaatatgtagGAAGGGTTACGGTAAAATATCTGCATCGGGTGGGAGGGGATGGGGTGGAGGTGGCGGAGGAAGGATCTCTCTTGACTGTTACAGCATACAAGAAGATGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggactttctgtggatttttctccctaactatttacttaatcatttatttggatagGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
tttattt CT-rich tract
taactatttacttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agatgttgcgtccatgacaaattaattatgtaattgtaatctagtggactttctgtggatttttctccctaactatttacttaatcatttatttggatagGAAGGGATATGGCACTATAAGTGCAGCAGGTGGTAGTGGATGGGGTGGAGGTGGAGGTGGAAGAATATCACTGGATTGTTATAGCATACAAGAAGATGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- atgttgc
- - - - - -ccatgac
- - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - ctttctg