Sequence
atgc intronic sequence ATGC exonic sequencegtatattctcttggctctttagctgataaaaaaattgaaattttgttccaaccatttaaacaataacaagcttgtccaattgtgacacagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
Basic information
species | Glycine max |
transcript | GLYMA07G05390.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g59040.3 (Oryza sativa), 3'ss of exon 6
gtatattctct-----tggctctttagctgataaaaaaa---ttgaa-------attttgttccaaccatttaaacaataacaagcttgtccaattgtgaca-cagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
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gtatattttctactgttctgtttgtagcaaagggaaaaagacctgcacgggttcactctttttgttttgttttttttttactgacgatattggattttgtgatcagGGTGAGAAGGATGACAAGATAATAGCAGTATGTGCTGATGATCCTGAATACCGTCATTACAATGACATCAGTGAGCTGTCTCCTCACCGCCTCCAAGAGA
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g59040.2 (Oryza sativa), 3'ss of exon 5
gtatattctcttggctctttagctgataaaaaaa---ttgaa-------attttgttccaaccatttaaacaataacaagcttgtccaattgtgaca-cagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
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-tttctactgttctgtttgtagcaaagggaaaaagacctgcacgggttcactctttttgttttgttttttttttactgacgatattggattttgtgatcagGGTGAGAAGGATGACAAGATAATAGCAGTATGTGCTGATGATCCTGAATACCGTCATTACAATGACATCAGTGAGCTGTCTCCTCACCGCCTCCAAGAGA
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G104918_T03 (Zea mays), 3'ss of exon 6
gtatattctcttg--gctctttagctgataaaaaaattgaaa---ttttgttccaacc-atttaaacaataacaagcttgtccaattgtgacacagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
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gtatttcatgttacagctctatttgtggtagagggaatagaagagctctgcttcgacttgtttctaaccttggatttctgttgggcgttgtca--gGGTGAAAAGGATGACAAGATAATAGCAGTATGTGCTGATGATCCTGAATACCGTCACTACAACGACATCAGCGAGCTGTCTCCTCACCGCCTGCAAGAGA
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G01050.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------gtatattctcttggctctttagctgataaaaaaattgaaattttgttccaaccatttaaa----caataacaagcttgtccaattgtgacac-agGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
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gtaaaacctaaacttgatcaatgaaaagactctgttttttttttctcttactctaatcctttaggtcagtttaaatggtcttgtactccaatcttgtatttttggcgctgtaattttagGGTGAAAAAGATGACAAGATCATTGCAGTGTGTGTTGATGATCCTGAATATAAGCACTACACTGACATCAAAGAACTTCCTCCTCACCGTCTCTCTGAAA
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
gtatattctcttggctctttagctgataaaaaaattgaaattttgttccaaccatttaaacaataacaagctt-gtccaattgtgacac-agGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
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--gtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgaggcatatgaaattcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ27171 (Selaginella moellendorffii), 3'ss of exon 4
gtatattctcttggctctttagctgataaaaaaattgaaattttgttccaaccatttaaacaataacaagcttgtccaattgtgacacagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
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-------------------------gtagcaaagtgtttacattcttttcagcgttt---ctctaagagtgtcatcta--tctgat-cagGGGGAGAAGGACGATAAGATCATAGCAGTGTGCGCTGATGATCCAGAGTACAAGCATTGCACGGACATCAAGCAGCTCCCGCCTCACAGGCTAGCAGAGA
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ33488 (Selaginella moellendorffii), 3'ss of exon 5
gtatattctcttggctctttagctgataaaaaaattgaaattttgttccaaccatttaaacaataacaagcttgtccaattgtgacacagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
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-------------------------gtagcaaaatgtttacatccttttcagcgtttttctaagagtg---tcatcta--tctgat-cagGGGGAGAAGGACGATAAGATCATAGCAGTGTGCGCTGATGATCCAGAGTACAAGCATTGCACGGACATCAAGCAGCTCCCGCCTCACAGGCTAGCGGAGAMapped 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|17400209|gb|BM176991.1|BM176991EST: GTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG GGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATAT
genomic: GTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAGgtatattctc ... tgtgacacagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaattttgttccaaccatttaaacaataacaagcttgtccaattgtgacacagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
caataac putative branch site (score: 2)
atttaaacaataacaa 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 |
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gtatattctcttggctctttagctgataaaaaaattgaaattttgttccaaccatttaaacaataacaagcttgtccaattgtgacacagGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
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