Sequence
atgc intronic sequence ATGC exonic sequence...aagacattgtaatttcataaacaatcagctccccagatattgtccttaggttttgtaatatattaatttgatggtataacactataacatatttttgtagGAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCAACAAAGAAATCATATCAAGGGGTAGATATGCTGAGCTCCGTGCAGCTGAACAGCGTTC
Basic information
species | Glycine max |
transcript | GLYMA17G09020.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 2
lower sequence: AT1G73990.1 (Arabidopsis thaliana), 3'ss of exon 9
-------aagacattgtaatt-tcataaacaa---tcagctccccagatatt-gtcc--ttaggttttgtaatatattaatttgatggtataacactataacatatttttgt---agGAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCAACAAAGAAATCATATCAAGGGGTAGATATGCTGAGCTCCGTGCAGCTGAACAGCGTTC
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gtgatctttctttttctacttaccaaagagaaagttttgtgctctgaatctttgtacaactatctctttcacccagtcgccatgcttgattgcttctgtttgttcttcttgttgcagCAAGATTTACCTTGGCCAAACTATATGAAAAGATTGGCTTCAACAAGGAAACTATATCTAGAGGAAAATATGCTGAGCTTCTGGGGGCTGAGGAAAGACC
upper sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 5
-----aagacattgtaatttcataaacaatcagctccccagatattgtccttaggttttgtaatatattaatttgatggtataacact-ataacatatttttgtagGAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCAACAAAGAAATCATATCAAGGGGTAGATATGCTGAGCTCCGTGCAGCTGAACAGCGTTC
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aagaaaaatggttagaacttttttctcaggttatactcaacataacctattctaatttt------tcttagttgtgtgttaatagattgatattctttgcttgtagGGAAGTTCAATTTGGGGACACTATATGAAAAAATTGGCTTCAATAAGGAGATTATATCAAGGGGAAGATTTGCTGAGCTCACAGCAGCTGAACAGCGGCC
upper sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g04700.t01 (Vitis vinifera), 3'ss of exon 1
--------------------aagacattgtaatttcataaacaatcagctccccagatattgtccttag-gttttg----taatatatt---aatttgatggtataacactataacatatt-----------tttgtagGAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCAACAAAGAAATCATATCAAGGGGTAGATATGCTGAGCTCCGTGCAGCTGAACAGCGTTC
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gtaagatgttagtggcggaaaaaaaattttatactaggaaaaagaaaattggaaaaacctttttctcagtgttctaaacataacctattgtaattttcatagttgtatgtgttaatagattggtattctttgcttgtagGGAAGTTCAATTTGGGGACACTAAATGAAAAAATTGGCTTCAATAAGGAGATTATATCAAGGGGAAGATTTGCTGAGCTCACTGCAGCTGAACTGCGGCCMapped 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|208052395|gb|GD851286.1|GD851286EST: TATTGTTGCAGAAAGTCTTACCTTAACTGGTTCGATTGGAGTGGTCACAG GAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCA
genomic: TATTGTTGCAGAAAGTCTTACCTTAACTGGTTCAATTGGAGTGGTCACAGgtgaacctgg ... atttttgtagGAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaggttttgtaatatattaatttgatggtataacactataacatatttttgtagGAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCAACAAAGAAATCATATCAAGGGGTAGATATGCTGAGCTCCGTGCAGCTGAACAGCGTTC
tattttt CT-rich tract
ttttgtaatatattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagacattgtaatttcataaacaatcagctccccagatattgtccttaggttttgtaatatattaatttgatggtataacactataacatatttttgtagGAAAATTTAACCTTGGGAAACTTTATGAGAAGATTGGCTTCAACAAAGAAATCATATCAAGGGGTAGATATGCTGAGCTCCGTGCAGCTGAACAGCGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA