Sequence
atgc intronic sequence ATGC exonic sequence...ggattaacatgtagagtgagtgtgaatgactgaaagagaatactaccatctccttatttttaacatttttattttgtgtgttgctgttgacttattaaagGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAACAACGGTGCAAATGTGTGGAATTTCCCAGTATCCTATGACAAGCTTGGGG
Basic information
species | Glycine max |
transcript | GLYMA06G11920.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G11920.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 8
------------------------------------------ggattaacatgtagagtgagtgtgaa--tgactgaaagagaatactaccatctccttat-ttttaacatttttattttgtgtgt-----tgctgt-tga-cttattaaagGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAACAACGGTGCAAATGTGTGGAATTTCCCAGTATCCTATGACAAGCTTGGGG
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gtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacctgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATCAATGGCGCAAATGTCTGGAACTGGCCAGTATCATATGACAAGCTTGGTA
upper sequence: GLYMA06G11920.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G44446.3 (Arabidopsis thaliana), 3'ss of exon 7
ggattaacatgtagagtgagtgtgaatgactgaaagagaatactaccatctccttatttt-taacatttttattttgtgtgttgctgttgacttattaa-agGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAACAACGGTGCAAATGTGTGGAATTTCCCAGTATCCTATGACAAGCTTGGGG
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---------------gtaaaagtacatcac---aaatggat-cgatcatcttcaaccatcgtcacagtcttgtttcttaagttaccgtttctatatttccagGTCTTAAACGAAGATCTACGGCTAGTTTTAGGACAACAAGAACGGATGTTAAACGGAGCAAACATATGGAATTTACCAGTTGCTTATGACAAGCTCGGAG
upper sequence: GLYMA06G11920.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 7
------------------------------------------------ggattaacatgtagagt----gagtgtgaatgactgaaagagaatactaccatctccttatttttaacatttttattttgtgtgttgctgt-tgacttattaaagGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAACAACGGTGCAAATGTGTGGAATTTCCCAGTATCCTATGACAAGCTTGGGG
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gtaaaatctccttcccactaatttcctcaagatgacatagtagcatgaagtttaaggcgctctgttcttgtatctgcattactctggttaaatgccatatgctatccaccctctctctatctgcacaatttcttgatgtgtgatttttttcagGTGTTGAATGAGGATCTACGGCTTGTACTTGGACAACAAGACCGGATGCTGATGGGGGCAAATGTGTGGAACTGCCCAGTATCATATGACAAGCTTGGAGMapped 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|20814890|gb|BQ299368.1|BQ299368EST: TTAAGCATATTCCTTTTATGCAACATCTATGGAGATATTTTGCAGAGCAG GTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAAC
genomic: TTAAGCATATTCCTTTTATGCAACATCTATGGAGATATTTTGCAGAGCAGgtagattttt ... cttattaaagGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAAC
EST:
gi|51336049|gb|CO979915.1|CO979915EST: TTAAGCATATTCCTTTTATGCAACATCTATGGAGATATTTTGCAGAGCAG GTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAAC
genomic: TTAAGCATATTCCTTTTATGCAACATCTATGGAGATATTTTGCAGAGCAGgtagattttt ... cttattaaagGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatctccttatttttaacatttttattttgtgtgttgctgttgacttattaaagGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAACAACGGTGCAAATGTGTGGAATTTCCCAGTATCCTATGACAAGCTTGGGG
ttatttttaacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggattaacatgtagagtgagtgtgaatgactgaaagagaatactaccatctccttatttttaacatttttattttgtgtgttgctgttgacttattaaagGTTTTAAACGAGGATCTACGGCTAGTGTTAGGCCAGCAAGAGCGGATGAACAACGGTGCAAATGTGTGGAATTTCCCAGTATCCTATGACAAGCTTGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - acatgta
- - - - - - - - -gagtgtg
- - - - - - - - - - - - -atgactg
- - - - - - - - - - - - - - - - aaagagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgct