Sequence
atgc intronic sequence ATGC exonic sequence...tttgaaaatgttagcatgatgtttaatattgagttggttttcttgcacatgaatcttcagctgatgtgatctgagtttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os01g46700.1 (Oryza sativa), 3'ss of exon 13
-----------------------------tttgaaaatgttagcatgatgtttaatattgagttggttttcttgcacatgaatcttcagctgatgtgatctgagtttgccttgttttcatgaa---attcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
|| | || ||| | || |||||| | || ||||| | || | || | || ||| | | ||| || || |||| | | ||||| || || || |||| ||||||||||||||| || |||||||| | || ||| || ||||| |||||||| || |||||||||||||| || ||| | |
gtagtataattggatgatatattaagtgtcttaagaagattaatct--tgaacaatattaaaatg----tcttgtatattgaagttgaactacaaaactctaattatgc-ttattctcatccattgctccagATGTGTGTCATTTGTAGGCAAATACATGGTTCGTGTACACAGTGCTACAGGTGCTCAACTTATTACCATGCCATCTGTGCATCAAGGGCAGGCTATAGGA
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G170412_T01 (Zea mays), 3'ss of exon 13
----------tttgaaaatgttagcatgatgtttaatattg----agttggttttcttgcacatga---atcttca-gctgatgtg-atctgagtttgccttgttttcatgaaattc---agATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
||| | | || | | || || || ||| ||| | || | || | | || | ||||| || | | | ||| | | |||| | || |||| || || || ||||||||||||||||||||||| || || || | || ||| ||||||||||||||||| || |||||||||||||| || ||||| |
gttgtttatctttcgtagt-ttcgtactataatttatgttgctcaagtggattgaccaacaagtaatacatttctgtgctgaagtatggcagtctatgctctatgctcatctatctctgcagATGTGTGTGATTTGTAAGCAAATACATGGTTCATGTACTCAATGCTACAGGTGCTCTACTTACTACCATGCCATTTGTGCATCAAGGGCAGGCTATCGAA
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 5
----tttgaaaatgttagcatgatgtttaatattgagttggttttcttgcacatgaatcttca-gctgatgtgatctga-gtttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
| || | || |||| | | || | ||| | | | | || || |||| || | | || ||| | || ||| |||||||||| || || |||||| |||| |||||||| |||||||| |||||||||||||| ||||| | |||||| ||||||||||||||||| || ||||| |
aaagctgataagtatt--tctgatttgataatttctctcggtgaatctcagtccggttgtacatgccaatgtaatttaaagtctgctataatt----gaatttcagATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAGTGTTCCACTTATTTCCATGCTATGTGTGCATCAAGGGCTGGTTATCGGA
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 14
tttgaaaatgttagcatgatgtttaatattgagttggttttc--ttgcacatgaatc--ttcagctgatgtgatctga--gtttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
| | || | | | | | |||| ||| ||| | | | || | | | || |||| | || ||| || || || |||||||||| || || ||||||||||| |||||||| || ||||| |||||||||||||||||||| | |||||| |||||||| |||||||| || ||||| |
-ctccatttggtggga--gcttcttgcattgggtttccttttgatgtctcttggtccactctaatgaatacaatctaaaagtctgcattacttgaatt---ttcagATTTGTGTTATTTGTAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCCGGTTATCGAA
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 14
-----tttgaaaatgttagcatgatgtttaatattgagttggttttcttgcacatgaatcttcagctgatgtgatctgag--tttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
| | | | || |||| ||| | |||| || | | | || | |||| | | || |||| | | ||| || || || |||||||||| || || || |||||||| |||||||| || ||||| |||||||||||||||||||| | |||||| |||||||| |||||||| || ||||| |
atttggtgggagctttttgcattgggttgccttttgat---gtctcttggtccactactctt-aacaaatacaatctaaaaatctgcattacttgaatt---ttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------tttgaaaatgttagcatgatgtttaatattgagttggttttc-ttgcacatgaatcttcagctgatgtgat-ctgag-----------tttgccttgttttc-atgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
| | || || || | | | | | ||| || | ||| |||| || | || | || | |||||| || | | |||||||| ||||| || |||||||||||||| |||||||| |||||||||||||| ||||| || || ||||| |||||||| || | || |||||| | |
gtacatacctgattcctggatatcatattcggcctatcgtgataataagattagctcctgcagttacttgtttctaaccttttgggaagtttcactatgtgcaaaactaaaaagccagaaaccttatcctgtttttgatatattccagATTTGTGTAATATGCAAGCAAATACATGGCTCATGCACTCAGTGTTGCAAGTGCTCTACGTATTATCATGCCATGTGTGCTTCCCGAGCTGGGTATAGAA
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 13
tttgaa---aatgttagcatgatg--tttaatattgagttggttttcttgcacatgaatcttcagctgatgtgatctgagtttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
| || ||| ||| | | || |||||| ||| | || | |||| | || | | | | | ||||| ||| | ||||||| || ||||| || || ||||||||||| || || || |||||||||||||||||||| ||||| ||||| |||||||| || | || || ||| | |
-gtaaatttaatattaacttattgtctttaattttggacctttccataactgtctgcgaccaaagctaaattgcatgaaatcttcttcgttttgatggatttcagATATGTGTAATATGCAAACAAATACATGGCTCGTGTACTCAGTGTTGCAAGTGTTCTACATACTATCATGCCATGTGTGCCTCCCGAGCTGGTTATAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacatgaatcttcagctgatgtgatctgagtttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
agctgat putative branch site (score: 4)
ttttcat putative PPT
atgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgaaaatgttagcatgatgtttaatattgagttggttttcttgcacatgaatcttcagctgatgtgatctgagtttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA
- -gaaaatg
- - - - - - -gcatgat
- - - - - - - - - - - - - - - gagttgg
- - - - - - - - - - - - - - - - - - - - -cttgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcagct