Sequence
atgc intronic sequence ATGC exonic sequence...gcagggagttgactagctattccatctgtatatgaattaggccatataattcttcaacttactctaagtcttacattttcaattttgtctgatttttcagATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGCAGAAACCTTTGAGAAGCCATTCCTTGAG
Basic information
species | Glycine max |
transcript | GLYMA05G27240.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 3
gcagggagttgactagctattccatctgtatatgaattaggccatataattcttcaacttactctaagtcttacattt--tcaattttgtctgatttttcagATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGCAGAAACCTTTGAGAAGCCATTCCTTGAG
|| | | |||| | ||| | || || | ||| | | | || | || | || | || | ||| || |||| |||||| || | || || || | || | ||||||| ||||||||||||||||||| ||||| ||| | || | ||||| ||||| || || |||
--gggtccattttaaattattaaaattgtggacttgaagggtcaatttattttatattcttctatgtaactgattattcattaaccatctcttccttatcagGCTTGGTGAAGCAATAGACAGGACATTACTTAGTCATCTTCTGAAGATGTTTACTGCTCTTGGAATGTATTCTGAGAGTTTTGAAAAGCCCTTTCTGGAG
upper sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 3
gcagggagttgactagctattccatctgtatatgaattaggccat--ataat-tcttcaacttactctaagtcttacattttcaattttgtctgatttttcagATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGCAGAAACCTTTGAGAAGCCATTCCTTGAG
| | | | | | ||||| | | ||| | ||||| | |||| || | ||| | || || | | || | | ||| | || ||| | || |||| ||||| |||| ||||||||||||||||||||||| |||||||||||| |||| ||||||||| || ||||||||
-aaatttcaaggcaaatcaggactagtgtatgtcatttatatattggataatgttttcatctgaatct--gctgaactttcttgcatgatattggtcctgcagGTTAGCAGAAGCTGTTAATAGGACTCTACTAAGCCATCTTTTGAAGATGTTTACTGCACTGGGAATTTATATGGAAAGCTTTGAGAAACCTTTCCTTGAA
upper sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 3
gcagggagttgactagctattccatctgtatatgaattaggccata--taattcttcaacttactctaagtcttacatttt----caattttgtctgatttttcagATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGCAGAAACCTTTGAGAAGCCATTCCTTGAG
| || | | | ||||| ||| ||| | | | ||| | ||| | ||| | | | || | | | || | | | | | ||||||| ||||||| |||| ||||| ||||| || ||||||||||||||||||||||||||||| ||||||||| |||| ||||||||||||||||| |||
-----aggatgtttggatgatccat-tgttcttgactagcttctttgttaaatgttctatttatttaacattttgtaatgtagagcattctatttttggtcttcagATTAGGTGAAGCAGTAGATAGGACTCTCCTTAATCATCTTTTGAAGATGTTTACTGCTCTAGGAATTTATTTGGAAAGTTTTGAGAAGCCATTCCTCGAGMapped 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|208046727|gb|GD849563.1|GD849563EST: GATCGGAAGTGAAAG ATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTT
genomic: GATCGGAAGTGAAAGgtaatttata ... gatttttcagATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataattcttcaacttactctaagtcttacattttcaattttgtctgatttttcagATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGCAGAAACCTTTGAGAAGCCATTCCTTGAG
tttttc CT-rich tract
ttacattttcaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcagggagttgactagctattccatctgtatatgaattaggccatataattcttcaacttactctaagtcttacattttcaattttgtctgatttttcagATCAGGTGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGCAGAAACCTTTGAGAAGCCATTCCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - -ccatctg