Sequence
atgc intronic sequence ATGC exonic sequence...gataatataaaattatatatgccattaaatttttttttttcagtagaaaataaaattggatttaatagatgaataatgatacttattcattgttaagcagATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACATCAACAAAGACTCTCCATCTGAGAACCGATTCGAGGAAGGACCGTG
Basic information
species | Glycine max |
transcript | GLYMA05G04340.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 1
--------------gataatataaaattatatatgccattaaatttttttttttc------agtagaaaataaaa---------ttggatttaatagatgaataatgatacttattcattgttaagcagATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACATCAACAAAGACTCTCCATCTGAGAACCGATTCGAGGAAGGACCGTG
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gtaagttttctttttctagtttgatgatatttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgttttgattaagtacttgagcttgtaactatgtttttgtttcagcagGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATAGAG
upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.2 (Arabidopsis thaliana), 3'ss of exon 1
--------------gataatataaaattatatatgccattaaatttttttttttc------agtagaaaataaaa---------ttggatttaatagatgaataatgatacttattcattgttaagcagATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACATCAACAAAGACTCTCCATCTGAGAACCGATTCGAGGAAGGACCGTG
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gtaagttttctttttctagtttgatgatatttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgttttgattaagtacttgagcttgtaactatgtttttgtttcagCAGGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATA---
upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.1 (Arabidopsis thaliana), 3'ss of exon 1
gataatataaaattatatatgccattaaatttttttttttcagtagaaaataaaa---------ttggatttaatagatgaataatgatacttattcattgttaagcagATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACATCAACAAAGACTCTCCATCTGAGAACCGATTCGAGGAAGGACCGTG
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-----tttgtggtcacaactttcttt----tttgcttttgtggttgaaaatgaaaacttgctgttttgattaagtacttgagcttgtaactatgtttttgtttcagcagGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATAGAGMapped 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|213599834|gb|DB973892.1|DB973892EST: TCTAGTTTAGTAGTGAGAGTAGTAGCATCATGCCGTGATAGCCCAGTGAG ATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTC
genomic: TCTAGTTTAGTAGTGAGAGTAGTAGCATCATGCCGTGATAGCCCAGTGAGgtaatttcgt ... tgttaagcagATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaataaaattggatttaatagatgaataatgatacttattcattgttaagcagATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACATCAACAAAGACTCTCCATCTGAGAACCGATTCGAGGAAGGACCGTG
atttaat putative branch site (score: 4)
atttaatagatgaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gataatataaaattatatatgccattaaatttttttttttcagtagaaaataaaattggatttaatagatgaataatgatacttattcattgttaagcagATCTCGTCATTCAGGGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACATCAACAAAGACTCTCCATCTGAGAACCGATTCGAGGAAGGACCGTG
- - - - - - - - -tatgcca
- - - - - - - - - - - - - - - - - - - - - - - aaaataa