Sequence
atgc intronic sequence ATGC exonic sequence...ctggagtgagtggaattcacctttataaattaaatcaaatcaatgaactaaaaggttcttatattgtgctctcaccctgtgtgtatatgttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
Basic information
species | Glycine max |
transcript | GLYMA12G10520.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 3'ss of exon 10
ctggagtgagtggaattcacctttataaattaaatcaaatcaatgaac-taaaaggttcttat-attgtgc--tctcaccctg-tgtgtatatgttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
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-----gtgag-ataacacctgttttcatatttacctgtgtgcacatgcacgccttgttctcattgttgcacaaactaatgctgattcctctaatccaattgctagACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGT
upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 9
ctggagtgagtggaattcacctttataaattaaatcaaatcaatgaactaaaaggttcttatattgtgctctcaccctgtgtgtatatgttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
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---------gtaagatgaagat---gagattacattgtatcat--agctcatttgttaactcatgtaactcttcgttcttatacatgttaaatgtttcagGCATGTTCTTCACAAGTATGCGAACGAAGATGTTTCGCTAGGAGCTTGGTTTATCGGGATTGATGTTAAACACATTGATGATAGAAGATTATGCTGCGGA
upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 9
------ctggagtgagtggaattcacctttataaattaaatca---aatcaatgaactaaaaggttcttatattgtgctct--caccctgtgtgtatatgtt--------ttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
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gtaagttttcacttaccattttcaaggggtaaaaaaggaatcagcaaattcttggattgatgtatt-tcataatatcctcttccactttttatggttattttgtacatgattattgcagGCATGTTCTTCACAAGTATGCTAATGAGGACGTTTCACTGGGTTCTTGGTTTATTGGTCTTGATGCGGAACATATTGATGATCGGAGATTATGTTGTGGCMapped 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|13181561|gb|BG352901.1|BG352901EST: CAGTTGTATGCCATTTCGAATGATTTGGCTACATACATATCAATTAACCA GAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTT
genomic: CAGTTGTATGCCATTTCGAATGATTTGGCTACATACATATCAATTAACCAgtaagtccta ... tttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactaaaaggttcttatattgtgctctcaccctgtgtgtatatgttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
tgttttctttc CT-rich tract
tatatgttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctggagtgagtggaattcacctttataaattaaatcaaatcaatgaactaaaaggttcttatattgtgctctcaccctgtgtgtatatgttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - -gtgagtg
- - - - - - - - tcacctt
- - - - - - - - - - - - - aaattaaa
- - - - - - - - - - - - - - - - - - - - -aatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgta