Sequence
atgc intronic sequence ATGC exonic sequencegtgatgaacaaactatgctatttgatagaataatagaacacattgtttcttatcttgtcttacaaataattaaaccattcaataatctggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 14
gtgatgaacaaactatgctatttgatagaataatagaacacattgt-ttcttatcttgtcttacaaataattaaaccattca-ataatc-tggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA
| ||| | | | |||| | || | | | | || | ||| | | |||| | ||| || | | | ||||||| |||||||||||||| |||||| | ||||| || ||||| || ||||| || || || |||||||||||||||||||| |||| |||||||| |
---------------------tcactagttttctgatattgattgaacttttgttaagacacagaatggagtaatttacaaatataactacacaactaacatgtttgtgcataatatgcagCAAGTTGCATGCTCATCTGCTGATGGAAGGCAACTGCTGGAATCCTCTAAAACTGCCCTTGACAAGGGAAAACTTGAAGATGCTGTCAATTATGGGACCA
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 16
gtgatgaacaaactatgctatttgatagaataatagaacacattgtttcttatcttgtcttacaaataattaaaccattcaataatctggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA--
| || | |||| |||||||||||||||||||||||||||||| | || || ||||| ||||| ||||| ||| |||| |||||||| ||||| |||||||| | |||||| ||||
-----------------------------------------------------------------------------------------------------gtgctgatactttgcagcaagcagcatgctcatctgcagatggaaggcagCTCCTAGAGTCATCCAAAACTGCTTTAGACAAGGGAAAGCTTGAGGATGCAGTTACCTATGGCACAAAG
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA16G02770.1 (Glycine max), 3'ss of exon 16
gtgatgaacaaactatgctatttgatagaataatagaacacattgtttcttatcttgtcttacaaataattaaaccattcaataatctggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA
|| | ||||| ||| | || |||| || | | || || || | | ||| || | || | | | | | |||| | || | | || |||||||||||||||||||||||||||||| | || || ||||| ||||| ||||| ||| |||| |||||||| ||||| |||||||| | |||||| ||||
gtaacaaacaagacatgttg---------atcatagg-----ttttcttgcatatttctttgaagttgattgaataaatccaaactttatacataatgctcatgctgatacgttgcagCAAGCAGCATGCTCATCTGCAGATGGAAGGCAGCTCCTAGAGTCATCCAAAACTGCTTTAGACAAGGGAAAGCTTGAGGATGCAGTTACCTATGGCACAA
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT1G01320.2 (Arabidopsis thaliana), 3'ss of exon 16
gtgatgaacaaactatgctatttgatagaataatagaacacattgtttcttatcttgtcttacaaataattaaaccattcaataatctggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA
|| | | |||| | || | | ||| ||| | | | || | ||| | | | | | | |||| | | || || || | |||| | ||| | |||||||||||||| |||||||| |||||| | |||||||| || ||||| ||||||||| |||| || ||||| |||||||||||||| | ||||| || |
gtaacggacaagacaatagatatta-ggaaaaatgttctatctgaatcaggattctttctaatatgttagtcagccat--agttattcagactt---tctattt-taaatctatgcagCAAGCAGCATGTTCATCTGCTGATGGAAGGCAACTTCTGGAGTCATCTAAAACAGCTTTAGACAAAGGAAAGCTTGAAGATGCAGTTACATATGGAACGA
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT1G01320.1 (Arabidopsis thaliana), 3'ss of exon 16
gtgatgaacaaactatgctatttgatagaataatagaacacattgtttcttatcttgtcttacaaataattaaaccattcaataatctggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA
|| | | |||| | || | | ||| ||| | | | || | ||| | | | | | | |||| | | || || || | |||| | ||| | |||||||||||||| |||||||| |||||| | |||||||| || ||||| ||||||||| |||| || ||||| ||||
gtaacggacaagacaatagatatta-ggaaaaatgttctatctgaatcaggattctttctaatatgttagtcagccat--agttattcagACTT---TCTATTT-TAAATCTATGCAGCAAGCAGCATGTTCATCTGCTGATGGAAGGCAACTTCTGGAGTCATCTAAAACAGCTTTAGACAAAGGAAAGCTTG------------------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaataattaaaccattcaataatctggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA
atttaat putative branch site (score: 4)
ttgcatttctttttct CT-rich tract
atttctttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgaacaaactatgctatttgatagaataatagaacacattgtttcttatcttgtcttacaaataattaaaccattcaataatctggatttaattgcatttctttttcttttcagCAAGCAGCATGCTCATCTGCAGATGGACGACAACTTCTAGAATCATCAAAAACAGCTCTAGATAAGGGAAAACTTGAAGATGCAGTCAGCTATGGGACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT