Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtcttcactaattctaattttttttttccttctcctgacaaggaatcttttagtgttttgtttttagttacaatggttgttccaattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g57400.2 (Oryza sativa), 3'ss of exon 4
gtaagtgtcttcactaattctaattttttttttccttctcctgacaaggaatcttttagtgttttgtttttagttacaatggttgttccaattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
|| || | | |||| || | ||| | | || | | | ||| | || | | | | || ||||||||||| ||||||||||| || || || |||||||| ||| ||||||| | ||||| || |||||| |||| ||||| ||||| ||||||||||| |
gtgcgttgcgt-actagttagatatttgcatcaattacttatactttgttgcatactagagaactgatgtagccttttctattttcattttccaacagATGGGGCTAATGAAGAAACACCCTTCCATAATACCATTTATGGTATACATTGCGAATGAGGAGAAACACATGGAGCGATTCGCTGTACGTGCAAAGTACA
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G342327_T01 (Zea mays), 3'ss of exon 4
--------------------------------gtaagtgtcttcactaatt-ctaattttttttttccttctcctgacaaggaatcttttagtgtt--ttgtttttagttacaatggttgttc-----caattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
|| | | | |||| | | ||| | || ||| | || || | | | | | | | | ||| | | | | ||| |||||||| | |||||||||||||| || || |||||||| ||| ||||||| |||||||| || |||||| |||||||||||||||| ||||||||||| |
gtacgtattagtcaagaaacagtgcaggggtgaggggtatttcaaaaaattgtttagtttatgttgttttccgttatttagttatatctcatttctcgtagccactgattaaagtcttcttctgctgttaatcaacagATGGGATTAATGAAGAAACATCCTTCCATAATACCATTTATGGTATACATTACAAATGAGGATAAACACATGGAACGATTTGCTGTACGTGCAAAGTACA
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G123544_T01 (Zea mays), 3'ss of exon 4
------------------------gtaagtgtcttcactaattctaattttttttttccttctcctgacaaggaatcttttagtgttttgtttttagttacaatggttgttccaattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
| || | ||| | | ||| |||||||| || | | || | | | | | | ||| |||| | | |||||||| | |||||||| ||||| || || |||||||||||| ||||||||||||| || || |||||| ||||||| |||||||| ||||| ||||| |
gtacgtatcagtcaagaaacgaaaatgagattgttcgtttagcctatgcttttttttttttttttttgcaga--------tggcactg-actatacgctacttctactgtt--gaccgacagATGGGATTAATGAAGAAGCATCCTTCCATAATACCATTCATGGTATACATCACAAACGAGGAGAAACACATGGAACGGTTTGCTGTGCGTGCGAAGTACA
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G20130.1 (Glycine max), 3'ss of exon 4
--gtaagtgtcttcactaattctaattttttttttccttctcctgacaaggaatcttttagtgttttgtttt-tagttacaatggttgttccaattg-gcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
| || || | ||| | || | | | | || | | |||| | | | || ||| | || | | | |||||||||||| |||||||||||||| ||||| |||||||| |||||| |||| |||||||| || |||||||||||| |||||||||| |||||||||||||
gtatgtttgattttcattattgtgtccttcactatttcttttcttatggatatcaatttattttctcattagatagcaataaaaacttgaatactcatgcagATGGGGCTCATGAAGAAACATCCTTCAATTATACCATTTATGATACACATTACAAATGAGGATAAACACTTGGAAAGATTTGCTGTACGTGCAAAGTATA
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G08340.1 (Glycine max), 3'ss of exon 5
gtaagtgtcttcactaattctaattttttttttccttctcctgacaaggaatcttttagtgttttgtttttagtta-caatggttgttccaattg----gcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
||| || | | | | | | ||| | |||| | | ||| || | | |||| | |||| || |||| || ||| |||||||||||| |||||||||||||| ||||| ||||||||||||||| |||| |||||||| || || ||||||||| |||||||||| ||||| |||||||
gtatgtttgattttcattattgtgtctttcactatttcttttcctatggattccaatt-tattttctcattagctagcaatcaaaatttgaatactcgtgcagATGGGGCTCATGAAGAAACATCCTTCAATTATACCATTCATGATACACATTACAAATGAGGATAAGCACTTGGAAAGATTTGCTGTACGTGCGAAGTATA
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S88_103V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------------------------------------------------------------gtaagtgtcttcactaattctaattttttt-----------tttccttctcctgacaaggaatcttt--tagtgttttgttt---ttagttacaatggttgttccaattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
|||| || | || | || | ||| | | | ||| ||| | ||||| | || | | | ||||| | ||| |||||||| || ||||| || ||||| ||||||||||| |||||||| |||||| | || ||| ||||||| |||| | ||||| |||||||||||||| |
gtaagcatttctgactctagcactgttatttattgacatgatcgttgctatgtcgtgcaatggtattcaaggttgtccaactctatcatggttgtcttacacacctgaatgtccagcactcgcaaagaaatactccatagtgaataaattcattcatgtttgatggtgaattgaatcttcagATGGGTCTCATGAAAAAGCATCCATCAATCATACCGTTCATGATGTACATCGCTAACGAAAGCAAACACATGGAGAGGTTTGCAGTTCGTGCAAAGTACA
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S7_501V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------------------------------gtaagtgtcttcactaattctaattttttttttccttctcctgacaaggaatcttttagtgttttgtttttagttacaatggttgttccaattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
| | | | || ||| ||| ||||||| | | | | ||| | | | || | | | | ||| || ||||||| || |||||||||||||| || || || ||||||||| | ||||| | || ||||| |||||| || || ||||||||||||||||||| | |
gtaagtatataatttgaagctcggatacggttccttcattgcaaatctgattcagattaccgatttatgccctttagttccttcgatttcttgcgtagtctgtagagggtaatccgtattcttactcttggtt----tttgcagATGAAACTGATGAAGAAACATCCCTCGATTATTCCATTCATGGTGTACATTGCCAAGGAAGAAAAACACATGCAAAGATTTGCTGTTCGTGCAAAACAGA
upper sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S15_107V6.1 (Physcomitrella patens), 3'ss of exon 6
gtaagtgtcttcactaattctaattttttttttccttctcctgacaagga-at-cttttagtgttttgtttttagttacaatggttgttccaattg--gcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
|||| |||| || || | | | || | | || || || || || || || | | || || || |||| ||||||||| || |||||||| ||||| || |||||||| ||||||||||||||| | || ||| ||| ||| |||| | ||||| |||||||||||||| |
--aagttacttctttacctcgtagtcctccgtttttcatggtgtcactgatatgctgctaagagttcgaagatgattcttatttgagtctaaatttctgcagATGGGACTGATGAAGAAGCATCCATCGATCATACCGTTCATGATATACATCGCTAACGAAAGCAAGCACATGGAGAGGTTTGCAGTTCGTGCAAAGTACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaggaatcttttagtgttttgtttttagttacaatggttgttccaattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
tcctgac putative branch site (score: 2)
ttgttcc putative PPT
ttttgtttttagtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtcttcactaattctaattttttttttccttctcctgacaaggaatcttttagtgttttgtttttagttacaatggttgttccaattggcagATGGGGCTTATGAAGAAACATCCGTCAATCATACCATTCATGATATACATCACAAATGAAGACAAACACTTGGAACGATTTGCTGTTCGTGCAAAGTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG