Sequence
atgc intronic sequence ATGC exonic sequenceGTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
Basic information
species | Glycine max |
transcript | GLYMA13G28720.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 5'ss of exon 5
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggc-ttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
| || |||| || ||||| ||||||||||| |||||||| || ||||||||||| |||||||||||||| || |||||||| |||||||||| |||||| ||| | | ||| ||| || | ||||||| | | | || | || | || | | | || || | || | | || | | | || | || | | ||| |
GCATAAAAGGAAAGATGAGAGATTACCAACTAGCTGGACTTAATTGGCTCATACGCTTGTATGAGAATGGCATCAATGGAATATTGGCTGATGAGATGgtactctattgctcttcattgttgttacacata--tcaattaacattaag--attatacttattgactcttatatggtt--at-gcttaattcaacttcatgagctcatatttggcatgaaatccttctcgttcag-------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 5'ss of exon 5
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgca-gttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
|||| | ||||| ||| | || |||||||| ||||| || || ||||||||||| ||||| |||||||| || ||||| || ||||||||||||||||| || | ||| || | | ||| ||| | || || | || | || || | ||| | | | | ||| ||
GTATAAAGGGGAAGATGCGAGACTACCAACTAGCTGGGCTTAATTGGCTCATACGGTTGTACGAGAATGGTATCAATGGTATATTGGCTGATGAAATGgtatgttagttgtgtactcctaagccaaagtcaataaaatgtccccaatatattattgaatgat--actgtgcttatacttataaaatca--tcattcag-------------------------------------------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 5
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgca-gttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
|||| | ||||| ||| | || |||||||| ||||| || || ||||||||||| ||||| |||||||| || ||||| || ||||||||||||||||| || | ||| | | | ||| ||| | || || | || | || || | ||| | | | | ||| ||
GTATAAAGGGGAAGATGCGAGACTACCAACTAGCTGGGCTTAATTGGCTCATACGGTTGTACGAGAATGGTATCAATGGTATATTGGCTGATGAAATGgtatgttagttgtgtacccctaagccaaagtcaataaaatgtccccaatatattattgaatgat--actgtgcttatacttataaaatca--tcattcag-------------------------------------------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G010085_T01 (Zea mays), 5'ss of exon 2
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgg-------gcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
| ||| | || || ||| | |||||||| |||||||||| || ||||| |||||||||||||||||||| || ||||| || | |||||||| |||||| | | | |||| | || || | | | | | ||| || ||| || || || |||| | ||| || |||| | ||||||
GCATCAAGGGAAAGATGCGTGATTACCAGTTGGCTGGACTTAATTGGCTTATACGATTGTATGAGAATGGTATCAATGGGATATTAGCTGATGAGATGgtatgcgataggtgttaatcttgattaagattatcttttactccattttgtt-gtgtttgacactttaactttgaatgtatgtttttttaaattg---ttatttag-------------------------------------------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: AC235535.1_FGT001 (Zea mays), 5'ss of exon 5
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
| ||| | || || ||| | ||||| ||| | |||||||| || ||||| |||||||||||||||||||| || ||||| || | |||||||| |||||| || | || | | | | || ||| || | |||| || | | ||| ||||| | | | |||| |||| || || | | ||
GCATCAAGGGAAAGATGCGTGATTATCAATTAGCTGGACTTAATTGGCTTATACGATTGTATGAGAATGGTATCAATGGGATATTAGCTGATGAGATGgta--tgctacatgtgtt---aatcttgattaa---gatgatcttc---tactctattttgttttgt--ttggcactttggct--ttgaatgcatacttttttataatttag------------------------------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 5
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgag---atgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
|||| || ||||| | || ||||||||| | ||||| ||||||||||||| || |||||||||| || |||||||| ||||| || |||||||||||| | | ||| | | |||| ||| |||| | | || || | | | ||| | || || | || | ||| | |||
GTATTCAGGGGAAGTTAAGAGATTACCAATTAGCTGGTTTAAACTGGCTCATTCGGCTGTATGAGAACGGCATAAATGGGATTCTTGCAGATGAAATGgtaaaccactaattatctta-----gcatataataagatt--tttca-gctctctaa--tgttatctgatgctaatctttattgtttttgttcatggtctag-------------------------------------------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 5'ss of exon 5
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
|||| |||||||| ||||| ||||||||| | ||||| | ||||||||||| || | ||||||||||| |||||||||||||| ||||||||||||||| | || | || | | | |||| | | | || | |||| ||||| ||| | || || | |||
GTATTCAAGGGAAGATGAGAGATTACCAATTAGCTGGTTTGAACTGGCTCATTCGTCTTTATGAGAATGGCATAAATGGAATTCTTGCTGATGAAATGgtaaataattct----cccccaacgat-ccaagcagaataagttctctatattctgtcatgcta-atcatgaaacttttttttccctg---tggtctag-------------------------------------------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 5
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgag-atgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
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GTATTCAGGGAAAGATGAGAGATTACCAACTTGCTGGCCTAAACTGGCTCATACGGCTGTATGAGAATGGCATCAATGGAATCCTCGCAGATGAAATGgtatgcatg----------gaatttgtgccttttggaattccccccctttcacttgattgcatcggttgactttcatcttatgggtaaaccattgtcaaatttgttgtat---------------------------------------------------------------------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|254345541|gb|GR851703.1|GR851703EST: TCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATG GGGCTTGGTAAA-CATTGCAA-CTATATCCTTAT
genomic: TCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgttt ... tgattggcagGGGCTTGGTAAAACATTGCAAACTATATCCTTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATCCAAGGGAAAATGAGGGATTACCAACTGGCTGGACTAAACTGGCTCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT