Sequence
atgc intronic sequence ATGC exonic sequence...gttagcatgagaaagagggagagtctgtacattcacaaagagttgtctggttttaaatcagtgtctctctcgctaacctctgcctctcttcccacttcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g01400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G22220.1 (Glycine max), 3'ss of exon 2
---gttagcatgagaaa-gagggagagtctgtacattcacaaagagttgtctggttttaaatcagtgtctctctcgctaacctctgcctctcttcccacttcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
|||| | | | || ||| | | | ||||| |||| || | | | | | | | | || | ||| ||||| ||||| |||||||||||||| || |||||||||||||| |||||||| ||||| |||||||||||||||||||||||||||||
agaattagttttggtattgataatgagatggaataggagcaaag--ttgttgggcatgattcccatct-tatagcactgat-tctttttctctcttttattcagGGTATTTGAAAAGTCACTGCAGTATGTGAAGCGTTTCAGCCGCTATAAAAATCCTGATGCTGTTAGACAAGTTCGAGA----------------------
upper sequence: Vv12s0028g01400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G32260.1 (Glycine max), 3'ss of exon 2
gttagcatgagaaagagggagagtctgtacattcacaaaga-gttgtctggttttaaatcagtgtctctctcgctaacctctgcctctcttcccact-tcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
|| | | | || ||| | | | |||| |||| || | | | | || | | | ||| || | | |||| |||||||||||||| || ||||||||||||||||||||||| ||||| ||||| |||||||||||||||||||||||
--tattgtcatattgataatgagatggaagaggagcaaaattgttggacatgattcccaccttatggcactgattgtttttctcttcttttttctttctcagGGTATTTGAAAAGTCACTGCAGTATGTGAAGCGCTTCAGCCGCTATAAAAATCCCGATGCTGTTAGACAAGTTCGAGA----------------------
upper sequence: Vv12s0028g01400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G09890.1 (Glycine max), 3'ss of exon 2
gttagcatgagaaagagggagagtctgtacattcacaaagagttgtctggttttaaatcagtgtctctctcgctaac-ctctgcctctcttcccacttc-agAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
|||| | | | | || | | || ||||| |||| | | || | | | || | || | ||||||| ||| || |||||||||||||| || ||||||||||| || ||||| || ||||| |||||||||||||| ||||||||||||||
attagattctgttttgacaacgggatggaagaggagcaa-agttg-ctgggcatgattcccatcttatagcactgattctttttctctctttttttttccagGGTATTTGAAAAGTCACTGCAGTATGTGAAACGTTTCAGTCGCTATAAAAATCCTGATGCTGTCAGACAAGTTCGAGA----------------------
upper sequence: Vv12s0028g01400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G09920.1 (Arabidopsis thaliana), 3'ss of exon 2
------------------------------------gttagc-atgagaaagagggagagtctgtacattcacaaagagttgtctggttt--taaatcagtgtctc-tctcgctaacctctgcctctcttcccacttcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
||||| || | || | | | || || | | ||| | || | ||||| ||| | | | | | | | | | | | |||||| ||||| |||||| | || ||||||||||| |||||||| || |||||||| |||||||||||||||||||||||
gtaagtataattgtgtttcatagagattcattgtatattagccatcatgaattgaagaatttagtcagttttatatgttacttctaggttagtgaatcaatgttgaatattgttgaagaagttatgtttgctccttgcagAGTGTTTGAGAAGTCCTTGCAATATGTGAAGCGATTCAGCCGCTACAAGAATCCAGATGCTGTTAGACAAGTTCGAGA----------------------
upper sequence: Vv12s0028g01400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ31182 (Selaginella moellendorffii), 3'ss of exon 2
gttagcatgagaaagagggagagtctgtacattcacaaagagttgtctggttttaaatcagtgtctctctcgctaacctctgcctctcttcccacttcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
|| | ||| || || | | | | | || | | | |||||| || || |||||| | |||||||||||||||||||| || |||||||| || ||||| |||||||||||
--------------------------------------------gtaagttttgtgttcttcgtgttcttggttttctcctcaccccggggacttggcagAGTCTTCGAGAAGTCCTTCGCTTATGTGAAGCGCTTCAGCCGCTACAAGAATCCGGAGGCTGTCCAGCAAGTTCGAGA----------------------Mapped 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|110419235|gb|EC985447.1|EC985447EST: TATGAACAGCTTCAGCAGATGTCTGATGATCCATTAAATCAAGTTTCTCA AGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAA
genomic: TATGAACAGCTTCAGCAGATGTCTGATGATCCATTAAATCAAGTTTCTCAgtgagtattt ... cccacttcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctggttttaaatcagtgtctctctcgctaacctctgcctctcttcccacttcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
cgctaac putative branch site (score: 2)
tctctctcgctaacct CT-rich tract
ttttaaatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagcatgagaaagagggagagtctgtacattcacaaagagttgtctggttttaaatcagtgtctctctcgctaacctctgcctctcttcccacttcagAGTATTTGAAAAGTCCCTACAGTATGTGAAGCGCTTCAGCCGGTATAAGAATCCTGATGCTGTTAGACAAGTTCGAGAAATTCTGAGCCGATACCAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - -catgaga
- - - - - - - - - - - - - - -cattcac
- - - - - - - - - - - - - - - - - - aaagagt
- - - - - - - - - - - - - - - - - - - - - -tgtctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcag