Sequence
atgc intronic sequence ATGC exonic sequenceAAAGCTAAGCATCATTCCTCAAGAACCAACTCTTTTCAAGGGCAGCATTCGAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAGgtaaatcaactggctctacaattgaaaaaacatgtaataaattgaattgtttttctctatttctattcactaagcaaaggttttgtgggctttcatttttacag
Basic information
species | Glycine max |
transcript | GLYMA08G20780.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20780.1 (Glycine max), 5'ss of exon 10
lower sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 9
AAAGCTAAGCATCATTCCTCAAGAACCAACTCTTTTCAAGGGCAGCATTCGAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAGgtaaatcaactggctctacaattgaaaaaac-atgtaataaattgaattgtttttctc-tatttctattcactaagcaaaggttttgtgggctttcatttttacag
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GAAACTGAGCATCATTCCTCAAGAACCAACTCTTTTCCGTGGCTGCATAAGGACAAACCTTGATCCTTTAGGTGTTTACTCCGACGATGAAATATGGAAGgtgaaataacaaaca--aagactgagatttccaaatcaaaagatataaaatctttctgataaaaccattctttttgcag---------------------------
upper sequence: GLYMA08G20780.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 20
AAAGCTAAGCATCATTCCTCAAGAACCAACTCTTTTCAAGGGCAGCATTCGAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAGgtaaatcaactggctctacaattgaaaaaacatgtaataaattgaattgtttttctctatttctattcactaagcaaaggttttgtgggctttcattt--ttacag---------------------------------------
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GAAGCTTAGCATCATCCCTCAAGAGGCCACTCTTTTCAAGGGTAGCATCCGAACTAACTTGGACCCTCTAGGCCTTTACTCTGACAATGAAATATGGGAGgtgagcctactcattttaactttcta-------gttcaaagttcaaacaattttacataccaatattcagaaaagaagaggacttttagcagtaaatcaatcacattattcacatatctgattggtttggttcttcattttgaag
upper sequence: GLYMA08G20780.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 9
AAAGCTAAGCATCATTCCTCAAGAACCAACTCTTTTCAAGGGCAGCATTCGAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAGgtaaatcaactggctctacaattgaaaaaacatgtaataaattgaattgtttttctctatttctattcactaagcaaag-gttttgtgggctttcatttttacag
||||| |||||||| |||||||| ||||||||||||||||| |||||||||| |||||||| |||||| |||| |||||||| |||||||||||||||| | | || || | || | | || | | | || | || | || | ||| || | | || | | || || || |||
GAAGCTCAGCATCATCCCTCAAGAGCCAACTCTTTTCAAGGGTAGCATTCGAACTAACTTGGATCCTCTAGGCCTCTACTCTGAGAATGAAATATGGAAGgtgagccctctc-ctttccagtcatgatctcagtttctgatttaagcca---------atgacgataaattaatcacattatcttatttggttct-ttgttgcag
upper sequence: GLYMA08G20780.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv09s0002g02440.t01 (Vitis vinifera), 5'ss of exon 8
AAAGCTAAGCATCATTCCTCAAGAACCAACTCTTTTCAAGGGCAGCATTCGAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAGgtaaatcaactggctctacaattgaaaaaacatgtaataaattgaattgtttttct-ctatttctattcactaagcaaaggttttgtgggctttcatttttacag-------------------------------------
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GAAGCTTAGCATTATCCCTCAGGAGCCCACTCTTTTCAAGGGTAGCATTCGAACTAACTTGGACCCTCTAGGCCTTTACTCTGACGATGAAATATGGGAGgttagcc--ctactcagtttaatggtcgttctagtgacagttccaattgtttgtcagcaacttctagtt-caaagca---gtttagatatcaataatatgaaaagaatcacatctttgattggttcagttcttcatttgcagMapped 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|51335548|gb|CO979414.1|CO979414EST: GAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAG GCTTTAGAGAAATGTCAGCTTAAGGCAACAATTAGTAGTCTTCCAAATCTC
genomic: GAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAGgtaaatcaac ... atttttacagGCTTTAGAGAAATGTCAGCTTAAGGCAACAATTAGTAGTCTTCCAAATCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAGCTAAGCATCATTCCTCAAGAACCAACTCTTTTCAAGGGCAGCATTCGAAAGAACTTGGACCCTCTATGCCTGTACTCTGATGATGAAATATGGAAGgtaaatcaactggctctacaattgaaaaaacatgtaataaattgaattgtttttctctatttctattcactaagcaaaggttttgtgggctttcatttttacag
- - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG