Sequence
atgc intronic sequence ATGC exonic sequence...attgattatattgtatgattatcttgcaaaaaattttatcagattatgggatgacttgtttcaaacagtgtactgatttttcggccttggtttaatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
Basic information
species | Glycine max |
transcript | GLYMA07G11880.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G11880.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g10050.1 (Oryza sativa), 3'ss of exon 2
-----attgattatattgtatgattatcttgcaaaaaattttatcagattatgggatgacttgtttcaaacagtgtactgatttttcggccttggttt----aatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
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accttctgaactacattcttt-attattttgc------tcttttttaatcttgg-acatcttacattctatatt-tcctgatccaagatacttaacttccattgtgcagAATATGTTTTGCAAGAAATTACAAAAGCTGGGTTTGTAGAACCTACTCCTATCCAGTCTCAAGGTTGGCCAATGGCACTGAGGGGACGTGATCTTATTGG
upper sequence: GLYMA07G11880.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G55150.1 (Arabidopsis thaliana), 3'ss of exon 2
--------------------attgattatattgtatgattatcttgcaaaaaattttatcagat-tatgggatgac--------ttgtttcaaac---agtgtactgatt--tttcggccttggtttaatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
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gtaaactcttgaatttggcaatcatgtagagcttgtgattagttt-cacttacatgtcttagatgtatgatgtagcatatatgcctgttttatttttggatatacctactgatatagtttcctgattggctcagATTATGTTTTGGAAGAGGTTAAGAAGGCTGGTTTTACTGAACCTACGCCTATACAATCTCAGGGGTGGCCAATGGCTATGAAGGGACGTGATCTTATCGG
upper sequence: GLYMA07G11880.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 2
attgattatattgtatgattatcttgcaaaaaattttatcagattatgggatgacttgtttcaaacagt-gtactgatttttcggccttggttt----aatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
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----aaatcagtgactggcaacctttcttgagaagttat-gctttggatgatggatattttaaaattgaagttttaattatttaaatgtacctttgtgactccagAATATGTCATGCAAGAAATTACAAAAGCTGGCTTTGCTGAACCTACACCCATCCAAGCTCAAGGATGGCCAATGGCTTTGAAGGGCCGTGATGTCATTGG
upper sequence: GLYMA07G11880.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S59_81V6.1 (Physcomitrella patens), 3'ss of exon 3
attgattatattgtatgattatcttgcaaaaaattttatcagattatgggat--gacttgtttcaa-----acagtgtactgatttttcggccttggtttaatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
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-----ggacactgtgtgattga-tcgggatcggtcctgtt-ggtggtggcattgggtttgtggcgctgatcacgctgcggcggttgtgtgtttgggaaatggagcagATTATGTGCTGCATGAGGTGCTGAAGGCAGGGTTCACGGAGCCAACAGCTATTCAAGCGCAAGGCTGGCCCATGGCTTTGAAGGGGCGCGACTTGATCGG
upper sequence: GLYMA07G11880.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ10791 (Selaginella moellendorffii), 3'ss of exon 2
attgattatattgtatgattatcttgcaaaaaattttatcagattatgggatgacttgtttcaaacagtgtactgatttttcggccttggtttaatc--cagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
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--------------------------------------gtaggcgaaggtttcttctatcgaggacaaggttttgattgatcttatgtggatgttttggcagACTATGTTCTCCAGGAAGTTCTCAAAGCCGGTTTCAAGGAGCCCACCGCCATTCAAGCTCAAGGATGGCCCATGGCTTTGAAAGGGAGGGATCTAGTAGG
upper sequence: GLYMA07G11880.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ26152 (Selaginella moellendorffii), 3'ss of exon 2
attgattatattgtatgattatcttgcaaaaaattttatcagattatgggatgacttgtttcaaacagtgtactgatttttcggccttggtt-taatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
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--------------------------------------gtaggcgaaggtttcttctatcgaggacaaggttttgattgatcttatgtggatgttttccagACTATGTTCTCCAGGAAGTTCTCAAAGCCGGTTTCAAGGAGCCCACCGCCATTCAAGCTCAAGGATGGCCCATGGCTTTGAAAGGGAGGGATCTAGTAGGMapped 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|193525613|gb|FK478444.1|FK478444EST: TCGAGATATCCCGAAACCTGTCAAGTCCTTTCATGATGCTGGTTTTCCAG AATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCA
genomic: TCGAGATATCCCGAAACCTGTCAAGTCCTTTCATGATGCTGGTTTTCCAGgtatttctgt ... tttaatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgggatgacttgtttcaaacagtgtactgatttttcggccttggtttaatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
tgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgattatattgtatgattatcttgcaaaaaattttatcagattatgggatgacttgtttcaaacagtgtactgatttttcggccttggtttaatccagAATATGTAATGGAAGAAATTACAAAAGCTGGCTTTACTGAACCTACGCCCATTCAATCTCAAGGTTGGCCCATGGCTTTGAAGGGGCGTGATCTAATAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - -tgtatga
- - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggccttg