Sequence
atgc intronic sequence ATGC exonic sequence...ctcttacgcatacatatagatatttttatttcaattgagatgtttattgtgcacacggattgttgaattttaatcaagtatgtgtgtgtgttatgagcagCCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATAGGAAGTATCGCAACGGTGATCGTCCCAATCGTGTTACTACCTCTGGGTA
Basic information
species | Glycine max |
transcript | GLYMA17G00650.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00650.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G02450.1 (Arabidopsis thaliana), 3'ss of exon 1
-ctcttacgcatac-atatagatatttttatttcaattgagatgtttattgtgcacacggattgttgaattttaatcaagtatgtgtgtgtgttatgagcagCCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATAGGAAGTATCGCAACGGTGATCGTCCCAATCGTGTTACTACCTCTGGGTA
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ctaattaaacaacctacatatatatcataagatatacaaatatgtgtat-gttttcataattagcttatgtatgtttaatcatagatatatgt-atatgcagCTATGGCGGCGATAGGAGAGAAAGAGTGGTACTTCTATGTGCCAAGAGATCGGAAATATAGAAATGGAGATAGACCGAACCGAGTAACGACTTCAGGATA
upper sequence: GLYMA17G00650.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0035g02020.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------ctcttacgcatacatatagatatttttatttcaattgagatgtttattgtgcacacggattgttgaattttaatcaagtatgtgtgtgtgtt--atgagcagCCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATAGGAAGTATCGCAACGGTGATCGTCCCAATCGTGTTACTACCTCTGGGTA
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gtacacttttctacatgaattccctcatccattttcatttcttaatttttgatgccctctctaccttcctttatttcctttttttttttttttctt-ttttatcatcaccatgcattcatctctcctgtatgagtagCCCTGGCTGCAATTGGAGAGAAGGAATGGTTCTTCTATGTGCCCAGAGACCGCAAGTATCGAAACGGGGATCGCCCCAACCGGGTCACCACTTCTGGCTAMapped 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|16105902|gb|BI893633.1|BI893633EST: GCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCG CCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATA
genomic: GCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatac ... ttatgagcagCCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtgcacacggattgttgaattttaatcaagtatgtgtgtgtgttatgagcagCCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATAGGAAGTATCGCAACGGTGATCGTCCCAATCGTGTTACTACCTCTGGGTA
ttttaat putative branch site (score: 3)
attgttgaattttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcttacgcatacatatagatatttttatttcaattgagatgtttattgtgcacacggattgttgaattttaatcaagtatgtgtgtgtgttatgagcagCCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATAGGAAGTATCGCAACGGTGATCGTCCCAATCGTGTTACTACCTCTGGGTA
- - - -gcataca
- - - - - - - - - - - - - - - - - - - - - - - - -tgcacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtgtg