Sequence
atgc intronic sequence ATGC exonic sequencegtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagttgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g36960.2 (Oryza sativa), 3'ss of exon 2
gtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagttgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
|||||| ||||||||||| || |||| | | | | || | | | || | | || ||| || | | || | || | || || | ||||| || || ||||||||||| || || |||||| |||| || || ||||| || || || || || || |||||||||||||| ||||||||||
gtgagcgggcaagttttg---tttattc--tatatcg------------------------aatttcaac-gtctttcctattctttatatattttctgattgtttcacttgtaatctgtagATTTTCTCAGTCAGTTTATTTTGGACTGGAGCTGTCCTTAGTAACACAGTCCATGTCATAGTATCAGGGATGGTTTTTCTTGTTCTCATTCATGGTGGTC
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G42290.1 (Glycine max), 3'ss of exon 3
gtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagttgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
|||||||||||||||||||| | ||| | ||| ||||| | || | ||| |||||||| | |||| ||| | ||| | | || | ||||||| |||| |||||||||||||||||||||||||| || ||||||||||| |||||| | |||||||| || |||||||||||||| | |||||||||
gtgagctggcaagttttgctatctgttctt---gtttggattggttttgg-----catcagatttcta----aactttccacatctgattacactgata----ttgctattcatgcttgcagGTTCTCTCTGTGAGCTTATTTTGGACAGGTGCAGTACTATGTAATACTGTGCATGTTGTAGTGTCTGGGATGGTGTTTCTTGTTCTTTTTCATGGTGGTA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G24760.1 (Glycine max), 3'ss of exon 3
gtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagttgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
|||||||||||||||||||||||||| | | | | | |||| | ||| | ||| | || ||||| | |||| ||| | ||| | || | ||||||| |||| ||||||||||||||||||||||||| || ||||||||||| |||||| | |||||||| || ||||||||||| || | |||||||||
gtgagctggcaagttttgctcttcatcctgtgttctagt-ttggactgtttttggcatca--gttt--actaaatcttcctcatctgattacactgata----ttgcaattcacgattgcagGTTCTCTCTATGAGCTTATTTTGGACAGGTGCAGTACTATGTAATACTGTGCATGTTGTAGTGTCTGGGATGGTGTTTCTTGTACTTTTTCATGGTGGTA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G24760.1 (Glycine max), 3'ss of exon 3
gtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagttgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
|||||||||||||||||||||||||| | | | | | |||| | ||| | ||| | || ||||| | |||| ||| | ||| | || | ||||||| |||| ||||||||||||||||||||||||| || ||||||||||| |||||| | |||||||| || ||||||||||| || | |||||||||
gtgagctggcaagttttgctcttcatcctgtgttctagt-ttggactgtttttggcatca--gttt--actaaatcttcctcatctgattacactgata----ttgcaattcacgattgcagGTTCTCTCTATGAGCTTATTTTGGACAGGTGCAGTACTATGTAATACTGTGCATGTTGTAGTGTCTGGGATGGTGTTTCTTGTACTTTTTCATGGTGGTA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G21270.3 (Glycine max), 3'ss of exon 1
gtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagt-tgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
||||||||||||||||||||||| ||| ||||| || ||||| | || | || || ||| | | || || | |||| ||| | ||| || || || | |||||| |||| | |||||||||||||||||||| || || || || ||||| |||||||| |||||||| | |||| |||||||| ||||||||||||
gtgagctggcaagttttgctcttaattttgtctgtgcttgttggg--agttggaactggttatttatggctgcagattgtgtaatctgattacactgatat-tgtcatcattaac----gcagGTCCTCTCTATAAGCTTATTTTGGACAGGTGCTGTACTCTGCAACACTGTGCATGTTATAGTGTCTGGGACAGTGGTTCTTGTTAGTATCCATGGTGGTAMapped 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|110362607|gb|EC926152.1|EC926152EST: GTGTTGTGGCTTCAAGTATAGGTGATAGTGGACGCTGGT-GCTTCTTGTG GTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTA
genomic: GTGTTGTGGCTTCAAGTATAGGTGATAGTGGACGCTGGTGGCTTCTTGTGgtgagctggc ... gcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcagaactttccttagttgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
ttagttgataacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagttgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG