Sequence
atgc intronic sequence ATGC exonic sequenceTGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatgtgctgtcaaggaattctttaattgtagcttatgactgattctt...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os12g10560.1 (Oryza sativa), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgt-----ttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatg-tgctgtcaaggaattctttaattgtagcttatgactgattctt
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TGAGTTGGCATACTTGGAATGCATCCACTTGTTTGTCGAGATATTAGATCATTTCTTCAGCAATGTGTGTGAACTCGACTTAGTATTTAATTTCCACAAGgtaacagctatttctcaacaggctattcctgt--atcagtatgacaa-ttatgatactcatgatccaattgcactcctttctcatgtttaagcagaagtgaaa---
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgt---ttgttacttgattag-cgtttcttgtccactggaataat-----accttccaa-ttctcatgtgctgtcaaggaattctttaattgtagcttatgactgattctt
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CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttatgcttcactaggctaatctagcaatctgcaataattcaatactttttatcttttcacatcttgtatttaaact-ttaaagagcagtttccaa---------
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA14G40430.2 (Glycine max), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatgtgctgtcaaggaattctttaattgtagcttatgactgattctt----
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TGAGTTGGCGTATTTAGAGTGCATCCATTTGTTTGTGGAAATATTGGATCACTTCTTCAGCAATGTCTGTGAGCTTGATTTGGTTTTTAACTTCCACAAGgtttgttaattgttaccttgttcctatcctgtgtt----tgtttgcttgttgtattttagcatcaaataatcatgtgattgttgatgttgatatctatgtgcca
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA17G37730.1 (Glycine max), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatgtgctgtcaaggaattctttaattgtagcttatga--ctgattctt-
|||||||| |||||||||||||||||| |||||||||||||| ||||||| |||||||||||||| || ||||| |||||||| ||||| ||||||||||||||||| || | || | | || | | | || | || | | | |||| ||| | ||||| | | ||| |||| |
-GAGTTGGCGTATTTAGAGTGCATCCATTTGTTTGTGGAAATATTGGATCACTTCTTCAGCAATGTCTGTGAGCTCGATTTGGTTTTTAACTTCCACAAGGtttgttaattctctcttcttgttcctataccgtgtttgtttgtttc--ttgcattttaccatcaaataatcatgggattgttgatgttgatgttgatgttga
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT1G47830.1 (Arabidopsis thaliana), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatgtgctgtcaaggaattctttaattgta--gct-tatgactgattctt
||||||||| || || ||| | |||||| |||||||||| ||| |||| ||||||||||||||||| || |||||||||||||| ||||||||||||||||| | || | ||| |||| ||| || || ||| |||| || | | || | || | |||| ||| || || | |
TGAGTTGGCTTACTTGGAGAGTATCCATTTGTTTGTGGAGATATTGGACCATTTCTTCAGCAATGTTTGTGAGCTAGATTTGGTGTTTAATTTCCACAAGgtacttaacctctttacttactcttatcctttgtaa--atagcttctggaactgcttcgttggattcataactttaagttgtgatgctgtacaacaactggt-
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: PP1S250_15V6.1 (Physcomitrella patens), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttg-------ttacttgattagcgtttcttgtccactggaataataccttc------caattctcatgtgctgtcaaggaattcttta-attgtagcttatgactgattctt-----------------------------------------------------------------
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CGAGCTGGCCTATCTTGAAAGCATTCATTTGTTTGTGGAGATATTGGACCATTTCTTCAGCAACGTCTGTGAGCTGGATTTGGTCTTCAACTTCCACAAGgtttaattgcgtttcttctcttgacatttggaacatacgtcatcaagctttttgcacagtaacttacatctgttgacatctagatctccgtattaagattcatggtggattgtaggatgcatgtcgaatgtttgtattgtggtggtgtgaaaataacgttttcatgctatggttgacag
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EFJ09792 (Selaginella moellendorffii), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatgtgctgtcaaggaattctttaattgtagcttatgactgattctt
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CGAGCTGGCCTACCTCGAGAGCATCCACCTCTTTGTGGAGATCCTAGACCATTTCTTCAGCAACGTTTGCGAGCTAGATCTGGTTTTCAACTTCCACAAGgccagtttctttccttgcttttttattctcccggtctggtgt-tgcaagcactcagcgcctgct---ggtttcgtttacag-------------------
upper sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EFJ11600 (Selaginella moellendorffii), 5'ss of exon 4
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatgtgctgtcaaggaattctttaattgtagcttatgactgattctt
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CGAGCTGGCCTACCTCGAGAGCATCTACCTCTTTGTGGAGATCCTAGACCACTTCTTCAGCAACGTTTGCGAGCTAGATCTGGTTTTCAACTTCCACAAGgccagtttctttccttgcttttttattctcccggtctggtgt-tgcaagcactcagcgcctgcc---ggtttcgtttacag-------------------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|37188193|gb|CF607542.1|CF607542EST: ATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAG GTTTATCTTATACTTGACGAATTCATTCTTGCTGGGGAGCTCCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttact ... tctgataaagGTTTATCTTATACTTGACGAATTCATTCTTGCTGGGGAGCTCCAAGAAACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgtttgttacttgattagcgtttcttgtccactggaataataccttccaattctcatgtgctgtcaaggaattctttaattgtagcttatgactgattctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaggaat