Sequence
atgc intronic sequence ATGC exonic sequence...catggacatacacaaggagttcagcagtataaaatggatgaaaataaaccatgttttttttttttttggtgagatctcaccttttggtgcctctctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 10
---------------------------------------------------------------------------------------catggacatacacaaggagttcagcagtataaaatggatgaaaataaaccatgttttttttt---tttttggtg-agatctcac-cttttg---gtgcctct--ctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
|| || | | | | ||| ||| | || | || | | |||| |||| | | |||||| || || ||| ||| || | | ||||| |||||||| |||||||||||||||||||| |||| ||||||||| ||||||||||||||
gtaagagtcaatccttgatgtttatttcttctttactcactttgaatttgaatggtattattatctcaaacaccccctttttgatccaatagaactgttttatcttaaggggaacatacaattattaaatcttttccttttcgcattttggattttggatatagatctgacactgttgcatgtgactttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGTGATCTTACCAG
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G11950.1 (Glycine max), 3'ss of exon 10
-----------------------------------------------------------------------------catggacatacacaaggagttcagc---agtataaaatggatgaaaataaaccatgt--tttttttttttttggtg-agatctcac-cttttg---gtgcctc--tctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
|| | | | || ||| | ||| ||| | || | || | | | || ||| | | |||||| || || ||| ||| || | | ||||| |||||||| |||||||||||||||||||| |||| ||||||||| || |||||||| ||
gtaagagtcaacttgatgtttatttcttctttactcactttgaatttgaatattgtattattatctcaacacccccttttgatccagtattggtagctcaaggcgaacatacaattattaaatctgttccttttggctattggaatttggatatagatctgacactgttgcatgtgactttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGCGATCTTACTAG
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------catggacatacacaaggagttcagc-agtataaaatggatgaaaataaacc---atgttttttttttttttggtg-agatctcac-cttttg---gtgcctc--tctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
| | | ||| || | ||| ||| | || | || || |||| |||| | | |||||| || || ||| || || | | ||||| |||||||| ||||||||||||| |||||| ||| ||||||||| ||||||||||||||
gtaagagtcaatccttgatgtttatttctttactcattttaaatttgaatggtattattatctcaaacactccctttttgatccaactgtttggcgaacatacaattattaaatctttccctatttgcattttggattttggatatagatctgacactgttgcatatgactttatttatagGGCCTTGACATTATTGGTGTTCAAATAGTTATCAACCTTGCATGTCCACGTGATCTTACCAG
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 10
-catggacat-acacaaggagttcagcagtataaaatggatgaaaataaaccatgttttttttttttttggtgagatctcaccttttggtgcctctctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
| | | | | ||| | | | | | | | || | || | ||| | ||| | | |||| | || ||||||||||||| ||||||||||||||||||||||| ||||| |||||||| || | |||
gtaagtataagaagcaaaaaacttattttcaagattctcttctcagtagctc-tgctatttaacctcttga--acactgtctgctttgatcattcc----agGGACTTGACATCATTGGTGTTCAAACAGTTATAAATTATGCTTGTCCTCGGGAAATAGACAGMapped 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|349812869|gb|FQ410511.1|FQ410511EST: TCAGGAAGCAGCAAGTTGATTTTTTGATTGCAACAGATGTTGCCGCTCGT GGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGT
genomic: TCAGGAAGCAGCAAGTTGATTTTTTGATTGCAACAGATGTTGCCGCTCGTgtaaggatat ... ctctctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGT
EST:
gi|161719083|gb|FC069336.1|FC069336EST: TCAGGAAGCAGCAAGTTGATTTTTTGATTGCAACAGATGTTGCCGCTCGT GGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGT
genomic: TCAGGAAGCAGCAAGTTGATTTTTTGATTGCAACAGATGTTGCCGCTCGTgtaaggatat ... ctctctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaccatgttttttttttttttggtgagatctcaccttttggtgcctctctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
atctcac putative branch site (score: 3)
tgcctctct putative PPT
atgttttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catggacatacacaaggagttcagcagtataaaatggatgaaaataaaccatgttttttttttttttggtgagatctcaccttttggtgcctctctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
- - - catacac
- - - - - - - - - -ttcagca
- - - - - - - - - - - - - - ataaaat
- - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcacct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttggtgc