Sequence
atgc intronic sequence ATGC exonic sequence...atgcactgcaagcattattcttttcaccatttaaatacttctatttgttttgaaattggaataattttttaatcagaaattgggatcattaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G107575_T01 (Zea mays), 3'ss of exon 3
--atgca-ctgcaagc--attattcttttcaccatttaaatacttctatttgttttgaaattggaataattttttaatcag--aaattgggatc--attaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
||||| |||| | | ||| || | |||| | ||| | | ||||| || | | || ||||| |||||| || | | ||||||||| ||||| ||||| ||||| ||| | ||| |||||||||||||||||||||||| | | |||||||| || ||||||||| |||| ||||| |
gtatgcatctgcttggcaactatactcatttgaatttcatcactattgt--attttgc--tttatgcactattgccatcagttaaattgacatgaaactggccttgcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGTCATTGATTTTGGTGACTTTGTCCGAGCTCTAAATGTGTTTCATCCAAATATCCCAATGGAAGAAA
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G015324_T05 (Zea mays), 3'ss of exon 3
--atgca-ctgc--aagcattattcttttcaccatttaaatacttctatttgttttgaaattggaataattttttaatcag--aaattgggatcattaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
||||| |||| | | || || | | || | ||| |||| | || || || | | || | ||||| ||||| || | ||||| ||||| ||||| ||||| ||| | ||| | |||||||||||||||||||||| | | |||||||| || ||||||||| |||| || || |
gtatgcatctgcttgacaaccatactcatttgaacttcatcactactatat----tgtgctttgagaactattgtcatcagttaaatttacatgaaactggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGACTTTGTCCGAGCTCTAAATGTGTTTCATCCAAATATCCCAATGGATGAAA
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G05580.1 (Glycine max), 3'ss of exon 4
atgcactgcaagcattattcttttcaccatttaaatacttctatttgttttgaaattggaataattttttaatcag--aaattgggatcattaaact---tgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
| || ||| | | || | | | | | | || | | || |||||| ||| ||| |||| || || || |||||||||||||| | |||||||| ||| ||||||||||||||| || | |||||||| || || || ||||||||||| |||||||| || ||||||||
----cttataaacatcttaaatgacattttatgt-cagtcttgtgtggtatctctatgaaataatctttcaattgactaaatatccattgatatgctatgtgcagATCTTTGATTTATTTGATGTCAAGAAGAAGGGAGTCATTGACTTCGAAGACTTTGTTAGATCTCTGAATGTTTTCCACCCAAATGCATCATTAGAAGACA
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G47100.1 (Arabidopsis thaliana), 3'ss of exon 4
atgcactgcaagcatta--ttcttttcaccatttaaatacttctatttgttttgaaattggaataattttttaatcagaaattgggatcattaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
| || || || ||| || | || | || || | | | | || | | | ||| | || | || ||||| |||||| | ||||||||||| || || || || ||||||||||| |||||||| || ||||| |||||||||||||| ||||| | | ||| || |
-------gtaaattctaagtttctttggccttagtaactttgtagttagtcgtaacgattagttctattataagtagttaatggtaatgctcttttttccagATATTTGATTTATTTGATGTTAAACGAAAAGGCGTAATTGATTTTGGAGACTTTGTGAGATCACTCAATGTTTTCCATCCTAATGCTTCCCTAGAGGAGA
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G17615.2 (Arabidopsis thaliana), 3'ss of exon 3
--atgcactgcaagcattattctttt-caccatttaaatacttctatttgttttgaaattggaataattttttaatcaga--aattgggatcattaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
| || | | | | ||||| || ||| | | || | | ||| ||||| | | || | || || | | |||||| |||||| | ||||||||||| || || |||||||| ||||| || |||||||| || ||||| ||||||||||| || ||||| | | ||||||||
gtaaaatcttaattcttcaggcttttacaagattcatcttctggaagagtgatctaaaccaagataatatgtccattatcctaaacaatattgcttttcc-gcagATATTTGATATGTTTGATGTTAAACGAAAAGGAGTCATCGATTTCGGGGACTTTGTAAGATCACTCAATGTTTTCCACCCCAATGCTTCTCTAGAAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttgaaattggaataattttttaatcagaaattgggatcattaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
ttttaat putative branch site (score: 3)
aaattggaataatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgcactgcaagcattattcttttcaccatttaaatacttctatttgttttgaaattggaataattttttaatcagaaattgggatcattaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- -cactgca
- - - - - - - - - - - - caccatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatcaga