Sequence
atgc intronic sequence ATGC exonic sequence...tttctactactaaagtcaattgtggtatatgctattattttgtgatgtttgtgggatttattcttttttataactgatttttattttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
Basic information
species | Glycine max |
transcript | GLYMA01G45700.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G76670.1 (Arabidopsis thaliana), 3'ss of exon 3
tttctactactaaagtcaattgtggtatatgctattattttgtgatgtttgtgggatttattcttttttataactgatttttattttcaactt--gtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
| | | || | | | | | | | || | ||| | | | | | || | | || ||||| | ||| || || |||||| ||||| ||||| || ||||| || ||| | ||||| |||||||||||||| |||||||| || || ||||| ||| ||||| || ||| || |
-ctggagtcctggaaagggcatttttctct-cgaaacttcttagatactatggcgtgtcaagtgttctgctgacaaattttcactttttcttttggttacagTCTATAGGCTCTCTGCAGAAGAAGTACTCAGTAGGATCCTTTGAATTGCTGAGCAAAACTGCACCAATCCAAGCCATTTCACTTCTCATCTGTGGCCCCT
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 3
--tttct-actact-aaagtcaattgtggtatatgctattattttgtgatgtttgtgggatttattcttttttataactgatttttattttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
| ||| | |||| || || ||| | | || || | | | | | || | |||| | | | | | | | || | |||||||||||||||| || || |||||||| || || ||||| || || ||||||||||| || ||||| || ||||| ||| || || || |||||||||
gatgtctgagtacttgaaactccttatggaaaagtcttaccttgaaaaacttctttcttgatgatgatgttttctgataaaagtgtctct----ctggaaacagTCAATAGGTTCACTGCAGAAGAAATACTCGATCGGATCATTCGAGTTGCTGAGTAAGACAGCTCCAATCCAAGCCATTTCACTCCTCATCTTTGGTCCAT
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G42420.2 (Arabidopsis thaliana), 3'ss of exon 2
tttctactactaaa-gtcaattgtggtatatgct-attattttgtgatgtttgtgggatttat-tcttttttataactgatttttattttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
| | | || || | | | | | || | ||| || ||| | |||||| ||| | ||| | || || ||||| || ||| ||| |||||||||||| || ||||||||||||||||| || ||||| ||| |||||||||| || || |||||||| ||| |||||| || | ||||| |
--cttgcagcaaattgtaagtctttttgtttggtgatttggttttgaagcttgtggaattcaaatctgatcaattggtgttttttccttctgtgttgct-tagTTAATAGGTTCTCTACAGAAGAAATATTCAATTGGGTCCTTTGAGTTGTTGAGTAAAACAGCGCCGATTCAAGCTTTTTCGCTTCTTGTTGTCGGTCCTT
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G42420.1 (Arabidopsis thaliana), 3'ss of exon 3
tttctactactaaagtcaattgtggtatatgct-attattttgtgatgtttgtgggatttat-tcttttttataactgatttttattttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
|| | | | | | || | ||| || ||| | |||||| ||| | ||| | || || ||||| || ||| ||| |||||||||||| || ||||||||||||||||| || ||||| ||| |||||||||| || || |||||||| ||| |||||| || | ||||| |
--------------gtaagtctttttgtttggtgatttggttttgaagcttgtggaattcaaatctgatcaattggtgttttttccttctgtgttgct-tagTTAATAGGTTCTCTACAGAAGAAATATTCAATTGGGTCCTTTGAGTTGTTGAGTAAAACAGCGCCGATTCAAGCTTTTTCGCTTCTTGTTGTCGGTCCTT
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 3
-tttctactactaaagtcaattgtggtatatgctattattt-tgtgatgtttgtgggatttattcttttttataactgatttttattttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
||| | || || | ||| || | | | | ||| |||| || ||| || | | | || ||| | | || || |||||||||||||||| | |||||||| || |||||||||||||| ||||||||||||||||||||||| ||||| | | | || ||| | ||||||||||
acatcttatgcttaa-tggattttgctggttcgtgatgtttgtgtggaaagagttttattcatgtcctctgacaa-tgagtggaaaattttctgtgatacagTCAATAGGTTCTTTGCAAAAGAAGTACTCAATTGGATCTTTCGAATTGCTGAGTAAAACTGCTCCGATTCAGTCCATCTCCCTCCTTGTGCTTGGTCCATMapped 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|193537479|gb|FK497216.1|FK497216EST: GTTTCATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATT TCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
genomic: GTTTCATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATTgtaagtatta ... cttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttgtgggatttattcttttttataactgatttttattttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
atttattcttttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctactactaaagtcaattgtggtatatgctattattttgtgatgtttgtgggatttattcttttttataactgatttttattttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATTCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
- - - - - - - - - - - - -tatatgc
- - - - - - - - - - - - - - - - - - -ttttgtg
- - - - - - - - - - - - - - - - - - - - - - - - ttgtggg