Sequence
atgc intronic sequence ATGC exonic sequence...agaaactgctctctctatttgattaaatctgtatataggactactcttttttctcacgccccctgcccccttttttgggggttttaattttgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAATTCTTTACAAAG
Basic information
species | Glycine max |
transcript | GLYMA19G45030.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G45030.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g06110.2 (Oryza sativa), 3'ss of exon 4
------------------------------------------------------------------------------------agaaactgctctctctatttga--ttaaatctgtatataggactactcttttttctcacgccccctgcccccttttttgggggttttaattttgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAATTCTTTACAAAG
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gtgaattctccacatatatatgtcatatcacaaatagttctatgctattactttctgaatttactttttgtactcactgtgattattagctggttaataaatacggctttaattgagttattgatatggatcttgcatcttttttttttcgttttcttgtttgccg--tctgattt-attctatagAGCATGTTGGGACAAAGACAGCTGTGCAGATCAGAAGTCATGCTCAAAAGTTCTTCACCAAG
upper sequence: GLYMA19G45030.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G01060.2 (Arabidopsis thaliana), 3'ss of exon 3
---agaaactgctctctc---tatttgattaaatctgtatataggactactcttttttctcacgc----cccctgccccctttt--ttggggg-------------ttttaattttgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAATTCTTTACAAAG
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gtcgaaagtttatcttttgaatgtttagtttgaactctttgagattttatattcctttgtttaggagtgtctttatctcctcttgattgggagattccttcttttcttttcattttgt-gtgcagAACATATTGGGACAAAGACTGCTGTTCAGATCAGAAGTCATGCACAAAAGTTCTTCACAAAG
upper sequence: GLYMA19G45030.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0048g02410.t01 (Vitis vinifera), 3'ss of exon 2
agaaactgctctctctatttgattaaatctgtatataggactactcttttttctcacgccccctgcccccttttttgggggttttaattttgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAATTCTTTACAAAG
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atctattatgaataacatggaatgttgtcttttaattatacttagtcttacttggagatctgttccttcctttcctttgtttttatttggtggtgtgcagAACATATAGGAACAAAGACTGCTGTGCAAATCAGAAGTCATGCACAAAAATTCTTTTCAAAGMapped 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|9205339|gb|BE331563.1|BE331563EST: ATTTCTAGAAGCCTTGCAGCTATACGGGCGAGCATGGCAGCGCATAGAAG AGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAAT
genomic: ATTTCTAGAAGCCTTGAAGCTATACGGGCGAGCATGGCAGCGCATAGAAGgcaatattat ... tgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAAT
EST:
gi|14639781|gb|BI173978.1|BI173978EST: CAGCGCATAGAAG AGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAAT
genomic: CAGCGCATAGAAGgcaatattat ... tgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttttctcacgccccctgcccccttttttgggggttttaattttgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAATTCTTTACAAAG
ttttgtt CT-rich tract
ttttaattttgttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaactgctctctctatttgattaaatctgtatataggactactcttttttctcacgccccctgcccccttttttgggggttttaattttgttgtgcagAGCATATAGGAACAAAGACTGCTGTGCAAATCAGGAGTCATGCTCAGAAATTCTTTACAAAG
- - - - ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggggtt