Sequence
atgc intronic sequence ATGC exonic sequence...taattgccggatgtctttaagaaaatggtattcacaactaatgaactaattcactgagttgtgtggattctggttgctccctgcccttttcctctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGCCCTATCCTCGCGGTGAAATATGTGTCAGGGGTCCCGTTCTCTTCCAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0128g00720.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os11g04980.2 (Oryza sativa), 3'ss of exon 16
taattgccggatgtctttaagaaaatggtattcacaactaatgaactaattcact--gagttgtgt-ggattctggttgc-tccctgcccttttcctctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGCCCTATCCTCGCGGTGAAATATGTGTCAGGGGTCCCGTTCTCTTCCAAGG
| | || || | || | | || ||||||| | | || | | || | | | ||| | | | | || | | ||||||| || ||||| |||||||| || |||||||||||||||||||||||||| || |||||||| || ||||| ||||| ||||| | | || ||
ttaaccccaaataagtctagg----tttcatcttcaactaaaatattgtttttttttgcgtgctatcacactctcataatgtaaatcctgttgccatttttcagAGATTAAGCTAGTGGATGTCCCAGAAATGAATTACACCTCTGAGGATCAACCATATCCTCGTGGAGAAATTTGTGTTAGGGGAACTACGATATTTTTTGG
upper sequence: Vv14s0128g00720.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os12g04990.3 (Oryza sativa), 3'ss of exon 15
---------------------------------------taattgccggatgtctttaagaaaatggtat-tcacaactaatgaactaattcactg--agttgtgtggattctggttgctccctgcccttttcct--ctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGCCCTATCCTCGCGGTGAAATATGTGTCAGGGGTCCCGTTCTCTTCCAAGG
||| | | | || | | | | |||| || || | | || | | || | | | | | || || || ||||||| || || || |||||||| || |||||||||||||||||||||||| | || |||||||| || ||||| ||||| ||||| || | ||| ||
gtaagatctgtgtttgggtttaactagacttggttggataaataacttgtccttttgttcacagtaattcctcactgttattgtttttgtacattatcacttctcacactcttccataacgcaaattctgtttctatttttcagAGATTAAACTAGTGGATGTCCCAGAAATGAATTACACCTCTGAGGATGAACCATATCCTCGTGGAGAAATCTGTGTTAGGGGACCTACGATATTCTGTGG
upper sequence: Vv14s0128g00720.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G176546_T01 (Zea mays), 3'ss of exon 7
---taattgccggatgtctttaagaaaatggtattcacaactaatgaactaattcactgagttgtgtggattctggttgctccctgcccttttcctctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGCCCTATCCTCGCGGTGAAATATGTGTCAGGGGTCCCGTTCTCTTCCAAGG
|| || | | | || | ||| | | | | | | | || | | || | | || || ||||| ||||||| | || ||||||||||| || ||||||||||| || ||||| ||||| || |||||||| || ||||| ||||| || || || | | ||||| ||
aatcaaatgacatccatatccaaaataattgggtgtgcctttgtgcttttgtattattgtcacagtttcgtaatg-tggatctttgtg--tttccattttcagAGGTGAAACTTGTGGATGTCCCAGAAATGAATTATACATCTGATGATCAACCTTATCCTCGTGGAGAAATTTGTGTTAGAGGACCTATAATATTCCAGGG
upper sequence: Vv14s0128g00720.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT5G27600.1 (Arabidopsis thaliana), 3'ss of exon 16
-taattgccggatgtctttaagaaaatggtattca-caactaatgaactaattca-ctgagttgtgtggattctggttgctccctg----cccttttcctctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGCCCTATCCTCGCGGTGAAATATGTGTCAGGGGTCCCGTTCTCTTCCAAGG
||| | | ||||| | | |||| | || |||| | | | | |||| || | | ||| || |||| || | | ||| |||| |||||||||||||| |||||||||||||| || || ||||| || || || || |||||||| ||||| || || || | ||||| ||||
gtaagcaatgtgttattttaaagacagtgtatatatcagaatccaaacttttgtatccaaattgtatgactggtttttgtgttttgaaaatgttttttctttcttagAGGTAAAACTTGTGGATGTTCCCGAAATGAATTACACATCAGACGATCAACCATACCCACGTGGTGAAATCTGTGTAAGAGGACCAATCATCTTCAAAGGMapped 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|71872136|gb|DT021191.1|DT021191EST: TAAGGGTGACAACTTATCTGGTCATGTTGGATCTCCTAATCCTGCTTGTG AAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGC
genomic: TAAGGGTGACAACTTATCTGGTCATGTTGGATCTCCTAATCCTGCTTGTGgtgagctgtc ... cctctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaattcactgagttgtgtggattctggttgctccctgcccttttcctctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGCCCTATCCTCGCGGTGAAATATGTGTCAGGGGTCCCGTTCTCTTCCAAGG
aactaat putative branch site (score: 2)
ttctggttgctccctg putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattgccggatgtctttaagaaaatggtattcacaactaatgaactaattcactgagttgtgtggattctggttgctccctgcccttttcctctttcagAAATAAAGCTTGTGGATGTTCCTGAAATGAATTACACCTCTGAGGATCAGCCCTATCCTCGCGGTGAAATATGTGTCAGGGGTCCCGTTCTCTTCCAAGG
- - - ccggatg
- - - - - - - - - aagaaaa
- - - - - - - - - - - - - - tattcac
- - - - - - - - - - - - - - - - - - - -aatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attctgg