Sequence
atgc intronic sequence ATGC exonic sequence...tttgcatggtatagtttgaatttaagatatatcaaattgcatttatttgatgattataagaaaacacaattagattttttctaagtcttcactcgcatagGTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAGTATTGGAAGAAGTCAAAGTTGCCTAATGCTACCTCGTTTAAACCACGAG
Basic information
species | Glycine max |
transcript | GLYMA03G40330.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40330.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g27020.2 (Oryza sativa), 3'ss of exon 3
-tttgcatggtatagtttgaatt-taagatata-tcaaattgcatttatttgatgattataagaaaacacaattagattttttctaagtcttcactcgcatagGTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAGTATTGGAAGAAGTCAAAGTTGCCTAATGCTACCTCGTTTAAACCACGAG
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atttattgtttttatcttgtgttgctatatatgctttagttgcttacataaaattgat-tgccattttctaattttaatatgtgcaa--tatgaactgatcagGTAGAACAGTTGCACAAGATTTTCAAGCTATGTGGCTCCCCCTCAGAGGAGTATTGGAAAAAGTCCAAGCTGCCACATGCTACAATATTCAAACCTCAGC
upper sequence: GLYMA03G40330.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G156251_T01 (Zea mays), 3'ss of exon 3
tttgcatggtatagtttgaatttaagatatatcaaattgcatttatttga---tgatta-taagaaaacacaattagattttttctaagtcttcactcgcatagGTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAGTATTGGAAGAAGTCAAAGTTGCCTAATGCTACCTCGTTTAAACCACGAG
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cttggatga-atagtgcgctttttag-tctgccatatttgcttaatttgaatgcaactactttgtctctactgttaaaactgggatgtacact-atttgc-cagGTGGAACAGTTGCACAAGATTTTCAAGCTATGTGGTTCCCCTTCTGAGGAGTACTGGAAGAAGTCTAAATTGCCACACGCAACAATATTCAAACCTCAAC
upper sequence: GLYMA03G40330.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g01260.t01 (Vitis vinifera), 3'ss of exon 6
tttgcatggtatagtt--tgaatttaagatatatcaaattgcatttatttgatgattataagaaaacacaattagattttttctaagtcttcact--cgcatagGTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAGTATTGGAAGAAGTCAAAGTTGCCTAATGCTACCTCGTTTAAACCACGAG
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---ctatgtcattgctgctgcattggaaatatatgcaactgt-ttaatttagagcacaacctaatactctactgctattaacaataatcttttctgtcacttagGTAGAGCAATTACATAAGATATACAAGCTATGTGGCTCACCTTCTGATGAATACTGGAAAAAATATAGATTGCCAAATGCAACCTTATTCAAGCCTCGAGMapped 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|15662127|gb|BI699498.1|BI699498EST: TTTTAGGAGAGTTATTGGCTGGGAAGCCAATCATGCCTGGTCGTACAGAG GTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAG
genomic: TTTTAGGAGAGTTATTGGCTGGGAAGCCAATCATGCCTGGTCGTACAGAGgtaacaattc ... actcgcatagGTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgatgattataagaaaacacaattagattttttctaagtcttcactcgcatagGTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAGTATTGGAAGAAGTCAAAGTTGCCTAATGCTACCTCGTTTAAACCACGAG
atttgat putative branch site (score: 5)
tcttcactc putative PPT
attataagaaaacaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgcatggtatagtttgaatttaagatatatcaaattgcatttatttgatgattataagaaaacacaattagattttttctaagtcttcactcgcatagGTGGAACAATTGCACAAGATATACAAACTATGTGGTTCACCTTCAGATGAGTATTGGAAGAAGTCAAAGTTGCCTAATGCTACCTCGTTTAAACCACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- -gcatggt
- - - - - - - - - - - - - - - - - - -tgcattt
- - - - - - - - - - - - - - - - - - - - - - - -tgatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa