Sequence
atgc intronic sequence ATGC exonic sequence...taaaatattccacgccactgcttttttaccatgtccatgctccttgggtcctattgctaaataatgaagactatttaaacttgtcgtttgatttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
Basic information
species | Glycine max |
transcript | GLYMA20G28120.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G19310.1 (Arabidopsis thaliana), 3'ss of exon 11
taaaatattccacgccactgcttttttaccatgtccatgctccttgggtcctattgctaaataatgaagactatttaaacttgtcgtttgatt-tgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
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-------------gtaaaaagtcttcatatatatatattcttatcaa---ctaaaaacatgatttggagactacatgctaatctctttgaatcatcaacagCTCAAGACAGGAGAGAGATGCTGGAAGAGATCATGAGCAAAGGAACAAGCTCACTGGGAGAAGATGTGCCAAGTGAGAGAGAGATTAACCGGCTCGCAGC
upper sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G06010.1 (Arabidopsis thaliana), 3'ss of exon 11
taaaatattccacgccactgcttttttaccatgtccatgctccttgggtcctattgctaaataatgaagactatttaaacttgtcgtt-tgatttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
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---------gtatgtctgtccgaaagaacaatatgagggcttct-gctttctatatcgatatggtaatctcttgatgtggtttttgtgattatatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCTCGCTCGGGACAGATGTCCCCAGTGAGAGAGAAATAAACCGGCTAGCGGC
upper sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 11
---taaaatattccacgccactgcttttttaccatgtccatgctccttgggtcctattgctaaataatgaagactatttaaacttgtcgtttg-atttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
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ttttgccttggaccatagaagatcttgctgatcatat--gtgttgcttac-ttttatca-tactcaaacaaaagcattaaagtatttcatttttgtttctgcagCTCAGGACAGAAGAGAAATGTTAGAGGAGATCATGCGTAGAGGTACAAATTCTCTTGGAGCAGATGTTCCAAGTGAAAGAGAGATCAACCGACTTGCAGCMapped 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|151405959|gb|EV275774.1|EV275774EST: CATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAG TCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCT
genomic: CATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtt ... atttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggtcctattgctaaataatgaagactatttaaacttgtcgtttgatttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
taaataatgaagacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaatattccacgccactgcttttttaccatgtccatgctccttgggtcctattgctaaataatgaagactatttaaacttgtcgtttgatttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - -ccacgcc
- - - - - - - - actgctt
- - - - - - - - - - - - - - ccatgtc
- - - - - - - - - - - - - - - - - -catgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaag