Sequence
atgc intronic sequence ATGC exonic sequence...aaccattcattagcaattccccttgcactcttttttaactgtagcaatgtgtgccatattctttgtaacaagtttttgattatttgtttgtgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG
Basic information
species | Glycine max |
transcript | GLYMA02G38160.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 6
---aaccattcattagcaattccccttgcactcttttttaactgtagcaatgtgtgccatattctttgtaacaagtttttgattatttgtttgtgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG
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atctgcaaatgaatgacattttcccataaattcttagtaacattcagatatg-atgctctagatactcctatagctcaaaggtt--ctacctactgtttgcagACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG
upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G135283_T01 (Zea mays), 3'ss of exon 6
---aaccattcattagcaattccccttgcactcttttttaactgtagcaatgtgtgccatattctttgtaacaagtttttgattatttgtttgtgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG-------
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atctgcaaatgaatgacattttcccataaattcttagtaacattcagatatg-atgctctagatactcctatagctcaaaggtt--ctacctactgtttgcagACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGGTCATTT
upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 6
----------------------aacc--attcattagcaattccccttgcactcttttttaactgtagcaatgtgtgccatattctttgtaacaagtttttgattatttgtttgtgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG
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gtacttgggttctagtctctctagcttggtcagtcagtatttgactttcttttctcatctctttgtgg-aattgatattgtatcttttcc--tcatttctt--ttatttgctcttgt---gcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG
upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 6
aaccattcattagcaattccccttgcactcttttttaactgtagcaa---tgtgtgccatattctttgtaacaagtttttgattatttgtttg-tgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG
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---atttgaggaataatttcttcttcctttttttttttttgataaaagcttgtcttcagtatctgatgtg-ctagcttttcatcattcttttaacattttgcagACCGACACCAAGAAGATATCTGCTGTGTCTATATTTTTTGAGACAATGCCATACAGATTGGATGAAAAAACTGGATATATTGACTATGACCAGMapped 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|5819930|gb|AI988197.1|AI988197EST: TTATGGCACTTGATCTTCCCCATGGTGGGCATCTGTCGCATGGTTATCAG ACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCA
genomic: TTATGGCACTTGATCTTCCCCATGGTGGGCATCTGTCGCATGGTTATCAGgttaagttct ... tgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgtgtgccatattctttgtaacaagtttttgattatttgtttgtgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG
tttttgattatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaccattcattagcaattccccttgcactcttttttaactgtagcaatgtgtgccatattctttgtaacaagtttttgattatttgtttgtgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA