Sequence
atgc intronic sequence ATGC exonic sequencegtataaaaatatattcttttgttgtgtgaaatcactttgttcaacatatattatttaatattaaactgatcaacatatcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
Basic information
species | Glycine max |
transcript | GLYMA0028S00210.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G163193_T02 (Zea mays), 3'ss of exon 5
gtataaaaatatattcttttgttgtgtgaaatcactttgttcaacatatattatttaatattaaactgatcaacatatcttttgg-tatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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----------gtaacctacacatccatgatacgatttagcttcatgtattgaattgtatgcttaatccctttccgtctgtcttgtctttgtagATTGATGCTGTTGCAAAAAGCCGTGATGGTCGATATCGCATTGTCAGTAATGATGAACGTGAGCAGACACTAAACCAATTGCTCACG
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 5
gtataaaaatatattcttttgttgtgtgaaat--cactttgt-tcaacatatattatttaatattaaactgatcaacatatcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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gtgtgaatacaaaatcagt-gttagattacctgctactttgtatcgatgtaaatc-ttta----caaatgtatttgtgtttctttcaat-ttcagATAGATGCTGTCGCGAAAAGCCGTGATGGTAAATTCAGAATGGTCAGCAATGATGAAAGGGAGCAAACCTTGAATCAATTGCTCACT
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 3'ss of exon 5
gtataaaaatatattcttttgttgtgtgaaatcactttgttcaacatatat-tatttaatattaaactgatcaacatatcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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gttagaataggtagtcgatgtcagattacctccggtatattaaacctctgggcatcttaaacaagattt-tctatttgcctctcatgctccagATAGATGCTGTGGCAAAAAGCCGTGATGGTAAATTCCGAATGGGGAGCAACGATGAAAGGGAGCAAACTTTAAATCAGTTGCTCACT
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 5
-gtataaaaatatattcttttgttgtgtgaaatcactttgttcaacatatattatttaatattaaactgatcaacatatcttt-tggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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gttagaaccgtggaat-ttttgttgtgt--attca---tgttcagcattttgagcttcctggtgcgttgttagtcatgtttttcttcttcgcagATAGATGCTGTAGCAAAAAGCCGTGATGGTAGATTTCGCATTGTTAGCAATGATGAGCGAGAGCAAACCTTGAACCAGTTGCTTACTMapped 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|254321724|gb|GR825041.1|GR825041EST: TATTTGCAAGGGCAAAAAGGGAAGCTCCGTCCATAATCTTTATTGATGAG ATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAAT
genomic: TATTTGCAAGGGCAAAAAGGGAAGCTCCGTCCATAATCTTTATTGATGAGgtataaaaat ... tggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttcaacatatattatttaatattaaactgatcaacatatcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
aactgat putative branch site (score: 3)
tatctttt putative PPT
atatattatttaatat 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
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gtataaaaatatattcttttgttgtgtgaaatcactttgttcaacatatattatttaatattaaactgatcaacatatcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGAAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA