Sequence
atgc intronic sequence ATGC exonic sequence...atataggaactacatgagtaattaaagcttttctgattttaaacatttttacttgattttaaaaaactggtaattttgttgttttatgatgtgtgtgcagTTGAGTACATGCGGTTACCGGCGAGTCAGTATTCGGTGTTGGACGCGGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTATGTTTATAGGTT
Basic information
species | Glycine max |
transcript | GLYMA10G18400.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G18400.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G04440.1 (Arabidopsis thaliana), 3'ss of exon 1
---atataggaactaca-tgagtaattaaagcttttctgattt-taaacatttttacttgattttaaaaaactggt---aattttgttgttttatgatgtgtgtgcagTTGAGTACATGCGGTTACCGGCGAGTCAGTATTCGGTGTTGGACGCGGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTATGTTTATAGGTT
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gtaacttcagcgcgattctctctgatctaaatttctgtttcctgtggatgattaaatctggatcggattgtttgattttgaatttgctttttgtttatg-gtttgcagTTGAGTATATGAGCTTACCTGCGAGTCAGTACTCGGTGCTTGATGCGGAGAGGATTGAGAGAGTTGATGATAACACGTTTAGATGTTATGTTTATACGTT
upper sequence: GLYMA10G18400.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0019g05380.t01 (Vitis vinifera), 3'ss of exon 1
atataggaactacatgagtaattaaagcttttctgattttaaacatttttacttgattttaaaaaactggtaattttgttgttttatgatgtgtgtgcagTTGAGTACATGCGGTTACCGGCGAGTCAGTATTCGGTGTTGGACGCGGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTATGTTTATAGGTT
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------gtaatgtttgagttgc-atggattgtattatgt--atggttcatttttgaattctcaatcgtgg--atttacttgtttt--ggt-tggttgcagTTGAGTACATGAGTTTGCCTGCGAGCCAGTACTCTGTGTTGGATGCTGAGAGGATTGAACGTGTGGATGATAACACGTTTCGGTGTTATGTGTATAGGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttacttgattttaaaaaactggtaattttgttgttttatgatgtgtgtgcagTTGAGTACATGCGGTTACCGGCGAGTCAGTATTCGGTGTTGGACGCGGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTATGTTTATAGGTT
acttgat putative branch site (score: 5)
attttaaaaaactggt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atataggaactacatgagtaattaaagcttttctgattttaaacatttttacttgattttaaaaaactggtaattttgttgttttatgatgtgtgtgcagTTGAGTACATGCGGTTACCGGCGAGTCAGTATTCGGTGTTGGACGCGGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTATGTTTATAGGTT
- - - - - -acatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtt