Sequence
atgc intronic sequence ATGC exonic sequencegtttgttgattcataaaaattttgtttccactgcagtgttgttgaatctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT
Basic information
species | Glycine max |
transcript | GLYMA10G15800.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G15800.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g41580.1 (Oryza sativa), 3'ss of exon 5
-------gtttgttgattcataaaaattttgtttccactgcagt--gttgttgaatctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT
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tagatatatctactgattattcctattcctattcctatggtatttgattccataacgccggtctataataattgtcctctcttcttccctttacttgaagGGAGTGCACCACTTACTGCTGTTCAGTTGCTATGGGTGAACATGATTATGGATACGTTGGGAGCCTTGGCCTTAGCCACAGAACCACCAAATGACGAAAT
upper sequence: GLYMA10G15800.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G41560.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgttgattcataaaaattttgtttccactg-cagtgttgttgaatctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT
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-----gtacgacagaaaaaccaatcaaacaccatctttcttctagcgtttggtcaaatatagtaaccatttcttttggtttctt--ttccagGATCTGCTCCACTCACTGCTGTGCAACTGCTTTGGGTCAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCAACAGAACCTCCCAATGAAGGTTT
upper sequence: GLYMA10G15800.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgttgattcataaaaattttgtttccactgcagtg-ttgttgaat--ctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT
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gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagtaa-----tgatt--gttttgcacctt---ttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
upper sequence: GLYMA10G15800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g08960.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------------------------gtttgttgattcataaaaattttgtttccactgcagtgttgttgaatctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT
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gtgcgttggcccatggagctagtcttttcatttcatgtagtgctcttatttgtacttttgcataatatgccaatcaacaacagcagcaataa---tgataataataataatgataaggatctttgaaacaacattcagGATCTGCCCCCTTTACGGCTGTCCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTCGGTGCATTGGCATTGGCGACAGAACCTCCAAACGATGCACTMapped 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|208218896|gb|GE019238.1|GE019238EST: AGTCAATATTGTTGCTCTGATTATTAACTTTGTTTCTGCATGCATCACAG GATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGG
genomic: AGTCAATATTGTTGCTCTGATTATTAACTTTGTTTCTGCATGCATCACAGgtttgttgat ... ttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgttgaatctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT
ttttcttccttatttt CT-rich tract
attaagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttgattcataaaaattttgtttccactgcagtgttgttgaatctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA