Sequence
atgc intronic sequence ATGC exonic sequence...accatgtaacaggtcactttttgactagactgtgttctccattgttctacaaaataacttgtgggcattggaatataatttgcaccttttgcatgtgcagCCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGTGGTGTTCTATATGAGGATCCTTATATTCAG
Basic information
species | Glycine max |
transcript | GLYMA17G05410.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 19
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 19
-accatgtaacaggtcac--tttttgactagactgtgttctccattgttctacaaaataacttgtgggcattggaatataatttgcaccttttgcatgtgcagCCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGTGGTGTTCTATATGAGGATCCTTATATTCAG
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ttctgtttcacaattcaagatccataataaaagaaaccgtaccatttttatatttgcatgcttg-aatttttttcttata--ctgttttgttttcttttacagCTTATCGGAAATATTGCTGAGAGATTTCATGCTTTATGTTTGAAAGACAGTGGTGTCTTATACGAGGATCCTCATATCCAG
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 19
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 19
accatgtaacaggtcactttttgactagactgtgttctccattgttctacaaaata-acttgtgggcattggaatataatttgcacc-ttttg----catgtgcagCCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGTGGTGTTCTATATGAGGATCCTTATATTCAG
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-----attcaagatccataataaaagaaaccgagccattt-ttgtactccataatatatttgcatgcttgtatttttttcttatactgttttgttttcttatacagCTTATCGGAAATATTGCTGAGAGATTTCATGCTTTATGTTTGAAAGACAGTGGTGTCTTATACGAGGATCCTCATATCCAG
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 19
accatgtaacaggtcactttttgactagactgtgttctccattgttctacaaaataacttgtgggcattggaatataatt-tgcacctt-ttgcatgt---gcagCCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGTGGTGTTCTATATGAGGATCCTTATATTCAG
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-ttat-taatattaaaaacacagtttagagctt-tgctgctttgcattggaaaata--ctggcctcatttatctgtgctgatgctcttgatcacatatcctgcagCCAATAGGAAATATTGCAGAACGGTTCCATGCTTTATGCCTGAAGGATAGCGGTGTGCTATACGAGGATCCGTATATCCAGMapped 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|14126214|gb|BG790652.1|BG790652EST: TTGAAGCCACAGCCATAGTACCTGCTGGAGAACAGGCCAATTCTGTACAG CCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGT
genomic: TTGAAGCCACGGCCATAGTACCTGCTGGAGAACAGGCCAATTCTGTGCAGgtacattgtt ... gcatgtgcagCCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctacaaaataacttgtgggcattggaatataatttgcaccttttgcatgtgcagCCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGTGGTGTTCTATATGAGGATCCTTATATTCAG
aaataac putative branch site (score: 2)
ccttttgc putative PPT
attggaatataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accatgtaacaggtcactttttgactagactgtgttctccattgttctacaaaataacttgtgggcattggaatataatttgcaccttttgcatgtgcagCCAATTGGAAATATTGCTGAAAGATTTCATGCTTTGTGCATGAAGGATAGTGGTGTTCTATATGAGGATCCTTATATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
-ccatgta
- - - - - - - - - - - - - - - tgtgttc
- - - - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtggg