Sequence
atgc intronic sequence ATGC exonic sequenceGCAGTTCCCCTCGTGTGCCACGGACACTCTCGCCCCGTGGTTGATCTCTTCTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGGgtaacttttactttttttcagctttaaattcggaacaatcattgtctttttatggatctgaaattattctggatttgttttggtgcctgctcctcagatt...
Basic information
species | Glycine max |
transcript | GLYMA17G12770.3 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12770.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os02g11060.1 (Oryza sativa), 5'ss of exon 1
GCAGTTCCCCTCGTGTGCCACGGACACTCTCGCCCCGTGGTTGATCTCTTCTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGGgtaa-----cttttactttttttcagctttaaattcggaacaatcattgtctttttatggatctgaaattattctggatttgttttggtgcctgctcctcagatt
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GGGGTGCCGCTCGTGTGCCACGGCCACTCGCGGCCGGTGGTGGACCTCTTCTACAGCCCCGTCACGCCCGACGGCTGCTTCCTCATCAGCGCGAGCAAGGgtaaacgcgcgcgtgttccctgacgatttttgctttgctctgattgcttgctctggattcgttgggacttgggaggccgatgcgttgcaatgcgattgtt-----
upper sequence: GLYMA17G12770.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os06g39760.1 (Oryza sativa), 5'ss of exon 1
GCAGTTCCCCTCGTGTGCCACGGACACTCTCGCCCCGTGGTTGATCTCTTCTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGGgtaacttttactttttttcagctttaaattcggaacaatcattgtcttttt-atggatctgaaattattctggatttgttttggtgcctgc-tcctcagatt
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GCGGTGCCGCTGGTGTGCCACGGCCACTCGCGCCCGGTCGTCGACCTGTTCTACAGCCCCGTCACGCCCGACGGGTACTTCCTCATCAGCGCCAGTAAGGgtaagtgagcggcgatccgaccgcccgaccgcgatttgatgccgttttttttatggttttcctgctgcgattcgtctggatcgggggcggtgtgatctga--
upper sequence: GLYMA17G12770.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G105398_T01 (Zea mays), 5'ss of exon 1
GCAGTTCCCCTCGTGTGCCACGGACACTCTCGCCCCGTGGTTGATCTCTTCTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGGgtaacttttactttttttcagctttaaattcggaacaatcattgtctttttatggatctgaaattattctggatttgttttg-gtgcctgctcctcagatt--
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GCGATCCCGCTGGTGTGCCACGGTCACTCGCGGCCGGTGGTGGATCTCTTCTACAGCCCCGTCACACCCGATGGTTACTTCCTCATCAGCGCCAGCAAGGgtaagcgaatccccgacctcccctcccatgtgatagttacattttagtttcctgatt---ggttcggatcggattggcatggtgagcgagttattttgatgcg
upper sequence: GLYMA17G12770.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G022275_T01 (Zea mays), 5'ss of exon 2
GCAGTTCCCCTCGTGTGCCACGGACACTCTCGCCCCGTGGTTGATCTCTTCTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGGgtaacttttactttttttcagctttaaattcggaacaatcattgtctttttatggat--ctgaaattattctggatttgttttggtgcctgc--tcctcagatt
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GCGATACCGCTGGTGTGCCACGGCCACTCGCGGCCGGTGGTGGACCTCTTCTACAGCCCCGTCACACCCGATGGCTACTTCCTCATCAGCGCCAGCAAGGgtaagcgaatcctcaacttcccttcccgtgtgata-gttcattttagttttctgattggctaggattggcttgg---tggttgagtgattgtgatgcgatgatcMapped 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|15815353|gb|BI787628.1|BI787628EST: CTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGG ATTCTAGTCCTATGCTCAGAAATGGAGAGACTGGAGATTGGATTGGAACAT
genomic: CTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGGgtaactttta ... tggtgttcagATTCTAGTCCTATGCTCAGAAATGGAGAGACTGGAGATTGGATTGGAACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAGTTCCCCTCGTGTGCCACGGACACTCTCGCCCCGTGGTTGATCTCTTCTACAGTCCCGTTACGCCCGATGGGTTTTTCCTCATCAGTGCCAGCAAGGgtaacttttactttttttcagctttaaattcggaacaatcattgtctttttatggatctgaaattattctggatttgttttggtgcctgctcctcagatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG