Sequence
atgc intronic sequence ATGC exonic sequence...aaaagaacattacagatcttccattgcctttctgttatgtaccacataaccttcagaaatataaattaattggtttcgggttcatatcgtttgtctgcagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGAATATCTGTGATGCGCCAGGTCATTGATACATATGAAAAATGGTGTTTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g01890.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g12540.2 (Oryza sativa), 3'ss of exon 6
-aaaagaacattacagatcttccattgcctttctgttatgtaccacataacctt-cagaaatataaattaattggtttcgggttcatatcgtttgtctg-cagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGAATATCTGTGATGCGCCAGGTCATTGATACATATGAAAAATGGTGTTTAA
| || | | | | ||| | || || | | | |||| | ||| | | | | | || | || | | |||| ||||||||||||||||||||||| || || || ||||| ||||| ||||| | || |||| ||||||||||| || ||||| ||||| |||||||||||||
ttacagtgaaccat---tttaccagaatatatcagtagtttgcttcatattttgacaggggaccacgtgacaaaatatactaatcttctcctatttctggcagGTTACAGGAATACCAGTTGTGTTTATGTCTGCATTGGAGGGTAGGGGGCGGATTGCTGTCATGCGCCAGGTTATAGATACTTATGAGAAATGGTGTTTAA
upper sequence: Vv16s0022g01890.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G848602_T01 (Zea mays), 3'ss of exon 7
---aaaagaacattacagat-cttccattgcctttctgttatgtaccacataaccttcagaaatataaattaattggtttcgggttcatatcgtttgtctgcagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGAATATCTGTGATGCGCCAGGTCATTGATACATATGAAAAATGGTGTTTAA
||| | || || | | | | | | |||| ||| || || | | || | ||| || | | || | |||| |||||| ||||||||||||| ||| ||| | ||||| | ||||| ||||| | || |||||||||||||||| || ||||| ||||| || ||||||||||
gctgaaaagaaataactgctacattctggaatatgttgttttgtttcatatt-cttgtggagtggcagattgcaaagtgttgatatccctccttttg---gcagGTGACAGGAATACCAGCTGTTTTCGTGTCAGCGCTGGAGGGGAGGGGGCGGATTGCTGTGATGCGCCAGGTTATAGATACCTATGAGAAGTGGTGTTTAA
upper sequence: Vv16s0022g01890.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G00640.1 (Glycine max), 3'ss of exon 3
aaaagaacattacagat--cttccattgcctttctgt-tatgtaccacataacct--tcagaaatataaattaattggtttcgggttcatatcgtttgtctgcagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGAATATCTGTGATGCGCCAGGTCATTGATACATATGAAAAATGGTGTTTAA
| |||| || || | |||| ||| | ||| | || | | | | | || || |||| | | | | || ||| |||||| | |||||| ||||||||||||||||||||||| ||||||||||| || | |||| || |||||||| || ||||||||||||||
----agtccttaccaatttctctcgttgcttttaagggcatgaataacgaactttatttattgttgtattttgattgagcattgacttttgacatt-gtcagcagGTAAAAGGAATCCCAGTTGTATTCATTTCAGCATTGGAGGGAAGGGGCAGGACCACTGTCTTGAATCAGGTCATCGAAACATATGAAAAATG--------
upper sequence: Vv16s0022g01890.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G40160.1 (Glycine max), 3'ss of exon 5
-------------aaaagaacattacagatcttccattgcctttctgttatgtaccacataaccttcagaaatataaattaattggtttcgggttcatatcgtttgtctgcagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGAATATCTGTGATGCGCCAGGTCATTGATACATATGAAAAATGGTGTTTAA
| | | | || | || | | || || | || || | | | | ||| | || |||| || || | || |||| ||||| ||||| || ||||||||||||||||||||||| ||||||||||| | | |||| || |||||||| ||||| |||||||||||||||| ||
caaacttgagaagatatgtaacttgcgaggctgtcgacggctgtcg---acatatcatgcagtccttaccaatttcaac--attgactt----ttgacat----tgtcaacagGTAACAGGGATCCCAGTTGTATTCATTTCAGCATTGGAGGGAAGGGGCCGGACCACTGTCTTGAATCAGGTCATCGATACTTATGAAAAATGGTGTTCAAMapped 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|294964908|gb|GW838711.1|GW838711EST: AGAAGGTCATGGAATCGGTTCCTGAAGAAATTCAGATGGTTATACCCCAG GTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGA
genomic: AGAAGGTCATGGAAGCGGTTCCTGAAGAAATTCAGATGGTTATACCCCAGgtttgtcaat ... ttgtctgcagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaccttcagaaatataaattaattggtttcgggttcatatcgtttgtctgcagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGAATATCTGTGATGCGCCAGGTCATTGATACATATGAAAAATGGTGTTTAA
aattaat putative branch site (score: 3)
tttgtct putative PPT
agaaatataaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaagaacattacagatcttccattgcctttctgttatgtaccacataaccttcagaaatataaattaattggtttcgggttcatatcgtttgtctgcagGTTACAGGAATACCAGTTGTATTCATTTCAGCATTAGAGGGAAGGGGAAGAATATCTGTGATGCGCCAGGTCATTGATACATATGAAAAATGGTGTTTAA
aaaagaa
- - - - - - - - -cttccat
- - - - - - - - - - - - tgccttt
- - - - - - - - - - - - - - - - - - - - -ccacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - agaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattaa