Sequence
atgc intronic sequence ATGC exonic sequencegtaagcaattttttacacttgttacttaatgttgaatattctgcttttgtttaatgtttctggtattaataatgtattttggatttagAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTCGACGCTGTTGATCCTAACAAG
Basic information
species | Glycine max |
transcript | GLYMA10G01550.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G01550.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g19510.1 (Oryza sativa), 3'ss of exon 3
gtaagcaattttttacacttgttacttaatgttgaatattctgc-ttttgtttaatgtttctggtattaataatgtattttggatttagAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTCGACGCTGTTGATCCTAACAAG
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gtacgggagcactaga--ttgttgcacaagtttatttgtggagggttctgtgtgctgt--ctgactctg----tgtgattgtggaacagAGGATTATCCGGTGTGGTGGACCCGTGGAGGATGATATGGCGAACATCATCGTTGCCCAGCTGCTATATCTCGATGCCATCGATCCTAACAAG
upper sequence: GLYMA10G01550.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagca-attttttacacttgttacttaatgttgaatattctgctttt--gtttaatgtttctggtattaataatgtattttgga--tttagAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTCGACGCTGTTGATCCTAACAAG
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gtaaacttatgaaatctactctttctttaagattgattatcatagtttctagcttagtgttaatgaatggtttcgtttgttttgatcttttagAGGATTATTCGCTGTGGTGGTGCTGTGGATGACGATATGGCAAACATAATTGTAGCTCAACTCCTGTATCTTGATGCTGTTGATCCTACTAAG
upper sequence: GLYMA10G01550.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 3'ss of exon 3
gtaagcaattttttacacttgttacttaatgttgaatattctgcttttgtttaatgtttctggtattaat------aatgtattttggattt------agAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTCGACGCTGTTGATCCTAACAAG
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gtaaggggctggttaagtttatcttttgctac-gcttactaaagtgttggcacacacttatg-cgttaatgcatccaatttgtctctgatttctcttcagAGAATAATCCGATGTGGTGGAGCTGTTGATGATGATATGGCAAACATCATAGTGGCTCAGCTTCTCTATCTTGATGCTGTTGATCCTGACAAGMapped 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|31561455|gb|CD487293.1|CD487293EST: CCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGTCAGCTTTTCCAATAC AGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATA
genomic: CCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGTCAGCTTTTCCAATACgtaagcaatt ... ttggatttagAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATA
EST:
gi|16279786|gb|BI943616.1|BI943616EST: CCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGTCAGCTTTTCCAATAC AGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATA
genomic: CCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGTCAGCTTTTCCAATACgtaagcaatt ... ttggatttagAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatattctgcttttgtttaatgtttctggtattaataatgtattttggatttagAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTCGACGCTGTTGATCCTAACAAG
tattaat putative branch site (score: 2)
tattaataatgtattt 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
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gtaagcaattttttacacttgttacttaatgttgaatattctgcttttgtttaatgtttctggtattaataatgtattttggatttagAGGATAATCCGTTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTCGACGCTGTTGATCCTAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT