Sequence
atgc intronic sequence ATGC exonic sequenceCCCTGATGAGTGTGCATGGGCTTATGGAATGAATATCTTTGATCTGCATGCATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtccacatatactcgtactaacataatttcagtttttcaaaattttaaattattcttttgattttcaatagtttgaagttcatacaaaatccacat...
Basic information
species | Glycine max |
transcript | GLYMA08G26480.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G26480.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os12g38930.1 (Oryza sativa), 5'ss of exon 5
CCCTGATGAGTGTGCATGGGCTTATGGAATGAATATCTTTGATCTGCATGCATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtccacatatactcgtactaacataatttcagtttttcaa---aattttaaattattcttttgatttt-caatagtt---tgaagttcatacaaaatccacat
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CCCTTCGGAGTGTGCATGGGCATATGGCATGAATATATTTGACCTGAGTGCATGGAGAAAGACATCCATTAAAGATAAATACCACCATTGGGTCAGGGAGgtaaaacatcg-atgccactaccttttcatctgcacacccccagttgtgttctacacatttttttccattttatagtaactaagtgaatattttctgatat------
upper sequence: GLYMA08G26480.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G15470.1 (Arabidopsis thaliana), 5'ss of exon 5
CCCTGATGAGTGTGCATGGGCTTATGGAATGAATATCTTTGATCTGCATGCATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtccac---atatactcgtactaacataatttcagtttttcaaaattttaaattattcttttgattttcaatagtttgaagttcatacaaaatccacat
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TCCTGAAGAATGTGCTTGGGCATATGGTATGAATATCTTCGATCTACAAGCTTGGAGGAAAACAAATATCAGAGAAACGTATCACTCTTGGCTTAGAGAGgtaactctatcgaataagcttacactt-ttttgtttttctttagcagaatctaaagttacctctctaatctactct-gtttacttttgctttggaacag----
upper sequence: GLYMA08G26480.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 5
CCCTGATGAGTGTGCATGGGCTTATGGAATGAATATCTTTGATCTGCATGCATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtc--cacatatactcgtactaacataatttcagtttttcaaaattttaaattattcttttgattttcaatagtttgaagttcatacaaaatccacat
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TCCCGAAGAATGTGCTTGGGCTTATGGAATGAATATCTTTGATCTACGGACTTGGAGGAAGACAAATATCAGAGAAACGTATCATTCTTGGCTTAAAGAGgtaaagtatcagagaagcctgtaatgttttgagttttagattcgaaattggcaaattattgatc--atgcttactggttttgctttgatgtgcag-------
upper sequence: GLYMA08G26480.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 5'ss of exon 5
CCCTGATGAGTGTGCATGGGCTTATGGAATGAATATCTTTGATCTGCATGCATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtccaca----tatactcgtacta---acata-atttcagtttttcaaaattttaaattattcttttgattttcaat-agtttgaagttcatacaaaatccacat
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TCCTGATGAATGTGCATGGGCTTATGGGATGAACATCTTTGATCTAAGTGCATGGAGGAAGACCAATATAAGAGAAACTTACCATTCCTGGCTGAAGGAGgtaagaactaagcactacatttgttttacacacttatgtgatagttttccttagtttct--tcattgcttcaaactgcagtgagcttcaagttcaataggta-------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|14258501|gb|BG881409.1|BG881409EST: CATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAG AATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCT
genomic: CATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtccac ... actatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCTGATGAGTGTGCATGGGCTTATGGAATGAATATCTTTGATCTGCATGCATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtccacatatactcgtactaacataatttcagtttttcaaaattttaaattattcttttgattttcaatagtttgaagttcatacaaaatccacat
- - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA