Sequence
atgc intronic sequence ATGC exonic sequenceGATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGAgtaaatatctaaaatattttaaaaatactttttaaaatttatccgattagttttgctgcatatttagattataaatatgataaattttccacttgatactgcag
Basic information
species | Glycine max |
transcript | GLYMA16G28980.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G152686_T01 (Zea mays), 5'ss of exon 5
GATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGAgtaaatatctaaaatattttaaaaatactttttaaaatttatccgattagttttgctgcatatttagattataaatatgataaattttccacttgatactgcag
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GACGACATTAAGTTTGGTGTGGATAATCAAGTTGATTACTATGCTGTTTCCTTTGTGAAAGATGCTCAAGTTGTCCACGAACTCAAGGATTATCTAAAAAgtaatcttcaacccaactttgtaaaaaatcata-----tcatgcacctttttttacaatttactgagctcat---tctattctattctcag-------------
upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 5
GATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGAgtaaatatctaaaatattttaaaaatactttttaaaatttatccgattagttttgctgcatatttagattataaatatgataaattttccacttgatactgcag
|| ||||| || ||||||||||| |||||||||||||| ||||| ||||||||||| || |||||| ||||||| || || ||||||| || | | |||||||| | || | || | | | | || | || | | | | | ||| | || | ||| ||| || |||||
GAGGATATTAAATTTGGAGTGGAGAACAAAGTTGACTTTTATGCAGTTTCCTTTGTCAAAGATGCTCAAGTTGTACACGAGTTGAAGAAATACCTTCAAAgtaaatacttggaacctattc----catcctaagtgaatgatttgccta-tgatatttcctttttggtctaaccttgagattg-tttgttacaaatatttgcag
upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 5
GATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGAgtaaatatctaaaatatt---ttaaaaatactttttaaaatttatccgattagttttgctgcatatttagattataaatatgataaattttccacttgatactgcag
||||||||||||||||| || || || ||||| ||||| ||||| || ||||||||||| ||||| |||| || |||||| ||||||| ||| |||| |||||||| || ||||| || ||||| | | || || ||| || | ||| || | ||| || | |||| ||| | |||| | | ||||
GATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAACTATCTGAAAAgtaaatacttaggatattcatttggaaataactaa-ataacttgcttgatctgtaat-ttgc---ttcaaattttaccacttataatctttac-cttgtttcggcag
upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S205_25V6.1 (Physcomitrella patens), 5'ss of exon 4
GATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGAgtaaatatctaaaatattttaaaaatactttttaaaatttatccgattagttttgctgcatatttagattataaatatgataaattttccacttgatactgcag
|| |||||||||||||||||||| ||||| || ||||| ||||| | |||||||| ||||||||| | || || |||||||| ||| | | | || ||| | || | | || |||| || | || | || | | || | | | | ||| |||| |||
GAAGATATCAAGTTTGGAGTGGAAAACAAGGTGGACTTTTATGCCCTATCCTTTGTCAAGGATGCTCAGGTGGTGCATGAACTCAAGTCCTTTCTAAAAGgtatgtttcgcacgtcattcttgtgtactattctcagaatagttttctggtggagtgtgagcttcattgaacagctgtgacc--ttttgtgaagaggactag--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|193466016|gb|FK430205.1|FK430205EST: CTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGA GCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCCA
genomic: CTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGAgtaaatatct ... gatactgcagGCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAATTATTTGAAGAgtaaatatctaaaatattttaaaaatactttttaaaatttatccgattagttttgctgcatatttagattataaatatgataaattttccacttgatactgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA