Sequence
atgc intronic sequence ATGC exonic sequenceACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctctctcacttaatatgcacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac...
Basic information
species | Glycine max |
transcript | GLYMA16G26550.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os02g31874.2 (Oryza sativa), 5'ss of exon 10
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgt-actttctctct-cacttaatat-----gcacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac
||||| | ||||||||||| || |||||||| ||||||||||| | ||||| || || || || || ||||||||| | || |||||||||||||| || | ||||| | | | || ||| ||| | | | | || | |||| | ||||| || || | |||
CCTGTCTCTTTTTGATGCAATACTGATTGTTCCAATGTTTCAGATTGCTTGGACCTTTTTTTCTATTTGCACAGGATTTGTGTACTTTCAAGAATATCAAgtgagtttctgtttgtaaatattatcgtaagcatgagaatcttgtgttgctcatga-taaactaagggttttggattgcctt-cattag------------------
upper sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G144254_T03 (Zea mays), 5'ss of exon 7
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtac-tttctctctcacttaatatgcacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac
||||||| ||||||||||| || |||||||| |||||||| || | ||||| |||||||| ||||||||||||||| | || |||||||||||||| ||| || || | | | |||| | | | | | ||||| | || || || | | | | |
GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttgagataatgggataatgaaaagtgaatcatgcattgcttaattagaaactgggtattctgtttttcctctgtcag------------
upper sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G477146_T01 (Zea mays), 5'ss of exon 10
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctctctcacttaatatgcacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac
|||||||| ||||||||||| || |||||||| |||||||| || | ||||| |||||||| || |||||||||||| | || |||||||||||||| ||| ||| | | | | | | | ||||| | | || || | || | | | || | |
GCTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATTTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaagttcctgtttgtgataatcggataa-tgaagtgaatcatgcatttcctcattataaaccgatgattctgtttttctgctgtcag------------
upper sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM5G837932_T01 (Zea mays), 5'ss of exon 1
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctctctcacttaatatgcacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac
||||||| ||||||||||| || |||||||| |||||||| || ||||| |||||||| || |||||||||||| | || |||||||||||||| ||| |||| | | | | | | | | | ||||| | || || | || | | | || | |
GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGTTTGGACCTTCTTCTCTATTTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaagttcttgtttattataatcggataa-tgaagtgaatcatgcatttcctaattataaactgatgattctgtttttctgctgtcag------------
upper sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11
lower sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctct--ctcacttaatatgcacaggtagcctttgctttgcatgggcactc-taagaa----gat--ttaatcatataatattgaagaaaactaat-taaatac----------------------------------------
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ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
upper sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 5'ss of exon 10
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctctctcacttaatatg---cacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac
|||||||||||||||||||||||||||||||||||||||| || | |||||||||||||| || |||||||||||| | || ||||| ||||||||||| || |||||||| || | | | | | ||| || | | || | |||| || || | | | | |
GTTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAAATTGCTTGGACTTTCTTCTCTATTTGTACAGGATTTGTATACTTTCAGGAATATCAGgtgctctctctctctctctctctctctcttatagaacctagtgactgaaaatttaacttaggtcaatttggctccattttacttgtgctgctcactggga---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|58021111|gb|CX707853.1|CX707853EST: GGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAG GTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTG
genomic: GGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctc ... ctgaacgcagGTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctctctcacttaatatgcacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaaaa