Sequence
atgc intronic sequence ATGC exonic sequence...ttcttgattcgcgtgttgtatggaggacacctgttgtgtatctttccttaaattatgtaactgtaatttggggtagaaccttgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g73450.1 (Oryza sativa), 3'ss of exon 4
ttcttgattcgcgtgttgtatgg-aggacacctgttgtgtatctttccttaaattat--gta-actgtaatttggggtagaaccttgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
|| || | | | | |||||| | | || | ||| || | | | | || || | ||| | || | || || |||||||||||||| |||||||| |||||||||||||||||||||||||||||||| || ||||| |||||||| |||||||| || ||||| ||||||
----tgttttaaaaaaaagaagacatcattcctgttataagtgatttcataatttctcagcataaaatagttcaccactttatcttactcttttcctaattcagCATGTTGGCTACTGTGATGAATGCCATATTTCTTCAAGCAACAATGGAGAGCATTGGAATACCAACCCGTGTCCAAACTGCATTTCGTATGTCAGAAGTT
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G149535_T01 (Zea mays), 3'ss of exon 4
ttcttgattcgcgtgttgtatggaggacacctgttgtgtatctttccttaaattatgtaactgtaatttgg-ggtagaacct-tgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
| | | | | | |||| ||| | || || || |||| ||| ||| | | | ||| | | | || || |||||||| ||||| |||||||||||||||||||||||||||||||||||||| || || || || |||||||| ||||| ||||| ||||| ||||||
-gcgtcgcctaggcgacaccttaaaaacac-tgtgacaaacagttttgtagttttggtaatcttaaaacaacagtacatcttatgaagctttcctaattcagCATGTTGGCCACTGTGATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATCGGAATACCGACCCGTGTCCAAACTGCCTTCCGTATGTCAGAAGTT
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G139462_T04 (Zea mays), 3'ss of exon 3
ttcttgattcgcgtgttgtatggaggacacctgttgtgtatctttccttaaattatgtaactgt--aatttggggtagaacct-tgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
|| | | | || | | | | ||| | | | | | | || || ||| | || ||| | | | | ||| | | || || ||| |||| ||||| ||||||||||||||||||||||| || ||||||||||| || || || || |||||||||||||| ||||| ||||| ||||||
-actctact-gttcattctggaaggcattcttgtgata-accagttgtatagttttggtactattaaaacaacagtacatcttattatgctttcctaattcagCATGCTGGCCACTGTGATGAATGCTATATTTCTTCAAGCGACGATGGAGAGCATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTT
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------------------------ttcttgattcgcgtgttgt-atggaggacacctgttgtgtatct--ttccttaaattatgtaactgtaatttggggtagaaccttga-------tgttgga---attttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
| |||| | || | ||| ||| | | | | || || ||| | | | | | | || || | |||| | || | |||||||||||| |||||||||||||||||||||||||||||||||||||| || |||||||| || ||||| || ||||||||||| || |||||||| |||
gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 4
ttcttgattcgcgtgttgtatggaggac-acctgttgtgtatctttccttaaattatgtaactgtaatttggggtagaacct-tgatgttgga---attttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
||| | | |||| || | ||| || || | || | | | ||| || || || | |||| | || | |||||||||||| ||||||||||||||||||||||||||||||||||||||||| || ||||| || ||||| || ||||| ||||| || |||||||| |||
----catttccaatttattatgatccactatgctttgagttgctcaaaatgcatga-gaagtagtatccaggcttattactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G18680.1 (Arabidopsis thaliana), 3'ss of exon 4
ttcttgattcgcgtgttgtatggaggacacctgttgtgtatctttccttaaattatgtaactgtaatttggggtagaaccttgatgt------------tggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
| | || ||| | |||| | | | | | || | | | || | || | | | | | || ||| | | || |||| ||||||| |||| ||||| |||||||| |||||||||||||| ||||||||||| |||||||||||||| ||||| || ||||| ||||| ||||| |||||
gtaatcatacgcct-ttgtgtcaaaggatcttcttcttcttactcggagaagatccagaattttcctctactggaggtttttggtctcattggtttatctgaaattggatagGATGCTGGCAACTGTGATGAATGCAATATTTCTTCAAGCGACAATGGAGAGTATTGGCATCCCAACCCGTGTTCAAACTGCTTTCCGCATGTCGGAAGTC
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S241_40V6.1 (Physcomitrella patens), 3'ss of exon 4
ttcttgat-tcgcgtgttgtatggaggacac-ctgttgtgtatctttccttaaattatgtaactgtaatttggggtagaaccttgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
| ||| || | | | | | || || || | | | | | | || | | || | || ||| | || ||| |||| ||||||||||| |||||||||||||| || ||||||| || |||||| | || || ||||| |||||||| ||| ||||| ||| |||
tatgcgatatcatgattggatcatatggtacgcttttagatgtgaaattcacacacaagcgctaattgttcaatgctacatct-ggcgt-ggatgctggcagCATGATGGCCACTGTTATGAACGCTATATTTCTTCAGGCCTCAATGGAAAGTATTGGCGTGCCCACACGTGTGCAGACTGCCTTCAGAATGAATGAGGTT
upper sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S10_28V6.1 (Physcomitrella patens), 3'ss of exon 4
ttcttgattcgcgtgttgtatggaggacacctgttgtgtatctttccttaaatt-atgtaa-ctg-taatttggggtagaaccttgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
| || | || ||| || | | ||| || || | ||| ||| | || | || ||| || | | ||| | || ||| ||||||||||||||||||| ||||||||||| || | ||||| || | || | ||||||||||| || || || || |||| |||| |||
taaccgag-catatgctgtttgtcatgagttaggggcacgtctagtggaaagttgaaataagctgatttttcgatgttgaatctgg--gctgggtgtgcccagAATGATGGCTACTGTTATGAATGCCATATTTCTTCAGGCTTCCATGGAAAGTGTGGGTGTGCCAACTCGTGTTCAAACAGCGTTTAGAATAGCTGAGGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttaaattatgtaactgtaatttggggtagaaccttgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
tttttt CT-rich tract
aatttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttgattcgcgtgttgtatggaggacacctgttgtgtatctttccttaaattatgtaactgtaatttggggtagaaccttgatgttggaattttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - tgtatgg
- - - - - - - - - - - - - -cacctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgatg