Sequence
atgc intronic sequence ATGC exonic sequence...ccttaatgttggatttattctgccttatgcctcattggtggacaaagcgctacacttggttttgtataagctgtcaactcatcacaaacatttttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0062g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g24560.1 (Oryza sativa), 3'ss of exon 4
ccttaatgttggatttattctgccttatgcctcattggtggacaaagcgc-tacacttggttttgt-ataagctgtcaactcatcacaaacatttttttca-gTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
| | | | | ||| | ||| ||| || | || || | | | || |||| |||| | | ||| | || |||||| || | |||| || || || || |||||||| |||||||| || ||||||| || ||||||||||||||||||||||| |||
tgtaacagcttggtttgatgtgc---atggcttactgttgtatatgtttcatatactttgtttcatcagtgactgatcctttgtcttgttcattttgttaaagTGGCACGCTTGAAATAAACTGTTCGAAGGACATTAAGGTTCAAGGTATTATTGGACCATGCACATCTTTGGAAAAG
upper sequence: Vv05s0062g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G045987_T01 (Zea mays), 3'ss of exon 4
--cctta-atgttggatttattctgccttatgcctcattggtggacaaagcgctacacttggttttgtataagctgtcaactcatcacaaacatt-tttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
| ||| || ||| | || | ||||| | | | | | | | | | | | || || | |||| || || | |||||| | | | || || ||||||||||| || || ||| | ||||| || |||||||||||||||||||||||||||
tactttatatacaaaattcagaacaactgctttgtcatt--ttgtgatatcattttgataactcctaaa-atgcagtta-ttcatggtttgttttgttctgcagTGGCATAATTGAAATAAACTGTTCAAAAGATATTAAAGTCCAAGGTATTATTGGACCATGCACATCTTTGGAGAAG
upper sequence: Vv05s0062g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G056695_T02 (Zea mays), 3'ss of exon 3
-cctta-atgttggatttattctgccttatgcc-tcattg-gtggacaaagcgctacacttggttttgtataagctgtcaactcatcacaaacatttttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
| ||| || ||| | ||| | ||||| ||| || | | | | | || || | | | | | || | |||||||||| | || || |||| ||| || || || ||| | ||||| || |||||||||||||||||||||||||||
actttatatacataattcagaacacctcctattgtcattttgtgatattagtgtaataactcctaaagtgcaa-ttatttgtggtttgt---cttgttctgcagTGGTACAATTGAAATAAACTATTCGAAAGATATTAAAGTCCAAGGTATTATTGGACCATGCACATCTTTGGAGAAG
upper sequence: Vv05s0062g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G05520.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------ccttaatgttggatttattctgccttatgcctcat-tggtggacaaagcg-ctacacttggttttgtataagctgtcaactcatcacaaacatttttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
| | ||| | ||| | | | || || || || | | || | || || || || | | ||| | || || ||||||||||||||| |||||| ||||||||||||||| ||||| |||||||| |||||||| || | |||||| | |||
gtgagttgttgctatagcctgatgtgcttcgtgctatttcaattgtccatgcatgctaaattaaattttccaagtgtcttatgttgcatctaagacatcttcagttagtcgcat------tctcactctttttcatactaccatttcagTGGTACACTTGAGATCTGCTGTTCAAAGGACATAAAAATCCAAGGGATTATTGGACCTTGTGCGTCTTTGCAAAAG
upper sequence: Vv05s0062g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G14160.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------------------------------------------------------------------------ccttaatgttggatttattctgccttatgcctcattggtgg-acaaagcgctacacttggttttgtataagctgtcaactcatcacaaacattt--ttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
|||| | | || ||| ||| | || | | | || | | || | || | || || || |||| | | ||| ||| |||||||||| || || ||||| || |||||||| |||||||||||||||||| | || || || ||| |||| || || |||
gtatgtttctgctctgcttctgtgtcaacactttgctattatatcttctgttgagttggtgttgcaagataaataatattttggcaattaagaccctttcttgtagagc-attatgcataatactgcttgtatgctatgataatatatattttgcattccttag--tgcaaactaactccgaacctttcattttcagTGGCACGCTTGAGATAAATTGTTCAAAAGACATCAAAATTCAAGGGGTTATCGGGCCTTGCTCATCATTAGAAAAG
upper sequence: Vv05s0062g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G23660.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------------------ccttaatgttggatttattctgcctt--atgcctcattggtggacaaagcgctacacttggttttgtataagctgtc-------aactcatcacaaa-cattt-ttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
|| || | | | |||| | || |||| ||| || | ||| || | || |||| | | || | ||| ||| ||||| || || |||||| |||||| |||||||||||||||||||| ||||| |||||| |||| || ||||||
gtaagtttctactttgtttatgcatcactctctttgataaatctattacatagtaaagaaaattttggcaatgtgataacctttccttcgaagcatcatacactt-caagcttgtatttaagaatttaaattatgtgcttacatcaaactgaccttgaatcgtttatttctagTGGGACGCTTGAGATCTGTTGTTCACAGGACATCAAAATTCAAGGGGCTATTGGGCCATGCTCATCATTAGAGAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71887295|gb|DT036350.1|DT036350EST: TTCAAGCGCATTTTTGAAGAAGGGGAACAGTCTCTTGGCCTCTCTTTTAA TGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCAT
genomic: TTCAAGCGCATTTTTGAAGAAGGGGAACAGTCTCTTGGCCTCTCTTTTAAgtgagttact ... tttttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCAT
EST:
gi|161713161|gb|FC062501.1|FC062501EST: TTCAAGCGCATTTTTGAAGAAGGGGAACAGTCTCTTGGCCTCTCTTTTAA TGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCAT
genomic: TTCAAGCGCATTTTTGAAGAAGGGGAACAGTCTCTTGGCCTCTCTTTTAAgtgagttact ... tttttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcgctacacttggttttgtataagctgtcaactcatcacaaacatttttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
catttttttc CT-rich tract
acaaacattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttaatgttggatttattctgccttatgcctcattggtggacaaagcgctacacttggttttgtataagctgtcaactcatcacaaacatttttttcagTGGTACACTGGAGATCAACTGTTCAAAGGACATCAAAATTCAAGGGATCATTGGACCATGCACATCTTTGGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - tgttgga
- - - - - - - - - tctgcct
- - - - - - - - - - - - - -tgcctca
- - - - - - - - - - - - - - - - - - - -ggacaaa
- - - - - - - - - - - - - - - - - - - - - - - - gctacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaaac