Sequence
atgc intronic sequence ATGC exonic sequence...gcattgattctttgtgttgaatgttttgaagagatagggctaaattggttattgccattcatacagtagcctaaacttggaatgatttcttattgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAACATTCAG
Basic information
species | Glycine max |
transcript | GLYMA16G33080.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g35630.1 (Oryza sativa), 3'ss of exon 7
gcattgattctttgtgttgaatgttttgaagagatagggctaaattggttattgccattcatacagtagcct----aaacttggaatgatttcttat-tgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAACATTCAG
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-----aatatatatcatatgatctttctgggatattttacttctaagcaaatcagaacttacatggacgtcttttgatacttttgtgaaatgttgatatatttagATTGTCAATGTCCCTGAGAAAGGAGCAAGGAAGCATCCTCGCGGTGATAATATACAG
upper sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G050186_T05 (Zea mays), 3'ss of exon 7
gcattgattctttgtgttgaatgttttgaagagatagggctaaattggttattgccattcatacagtagcctaaacttggaat----gatttcttattgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAACATTCAG
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----agtttgtcttcattgggggtataacaaaaattataacttgtttcatatttctatataaatgttttatttatttttccttttgaaattatggcatgcttagATAGTCAACGTTCCTGAGAAAGGAGCAAGGAAGCATCCTCGTGGTGATAATATACAG
upper sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G101791_T02 (Zea mays), 3'ss of exon 7
gcattgattctttgtgttgaatgttttgaagagatagggctaaattggttattgccattcatacagtagcctaaacttggaat----gatttcttattgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAACATTCAG
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--atcagtttgtcttcattggggcatacaaaagttatagcttgtttcat-atctctatataaat-gtattattaattctccgtttcaaattctgtcatgcttagATAGTCAACGTTCCTGAAAAAGGAGCAAGGAAGCATCCTCGTGGTGATAATATACAG
upper sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 7
gcattgattctttgtgttgaatgttttgaagagatagggctaaattggtt--attgccattcatacagtagcctaaacttggaatgatttcttattgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAACATTCAG
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-aatggattatcttgcttttgaaatcagccatgcctgttatataaccattggatcatcgtttgt-tggtgtcctgaacgtataatgtttttgtcttctccagATAGTGAATGTTCCTGAGAAGGGAGCGAGGAAGCATCCTCGGGGTGATAATATTCAGMapped 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|16276814|gb|BI942058.1|BI942058EST: TTTCTGGTGAGGGTGTTCAGCAGGCATTATTGAAAATGCTTGAAGGAACT ATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAAC
genomic: TTTCTGGTGAGGGTGTTCAGCAGGCATTATTGAAAATGCTTGAAGGAACTgtaagtaaag ... tattgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggttattgccattcatacagtagcctaaacttggaatgatttcttattgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAACATTCAG
gcctaaa putative branch site (score: 3)
tttcttatt putative PPT
aatgatttcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcattgattctttgtgttgaatgttttgaagagatagggctaaattggttattgccattcatacagtagcctaaacttggaatgatttcttattgtctagATAGTAAATGTTCCTGAGAAAGGAGCTAGGAAGCATCCACGGGGGGATAACATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - -ctttgtg
- - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcctaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaatga