Sequence
atgc intronic sequence ATGC exonic sequencegtaccttttgttgtaatttacttcctgtcctgcttttcaaacttcatttaactttgtcagtgttgaaatgtgttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGACAGGGAAAATATTAGTAATGCTGCCGTTATGATTCAGCCGTCATTGATAT
Basic information
species | Glycine max |
transcript | GLYMA18G00670.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G00670.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G14160.2 (Arabidopsis thaliana), 3'ss of exon 9
--------------gtaccttttgttgtaatttacttcc-------tgtcctgcttt-tcaaacttcatttaactttgtcagtgttgaaatgtgttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGACAGGGAAAATATTAGTAATGCTGCCGTTATGATTCAGCCGTCATTGATAT
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gtagactaccgtttttagatttcatcaatatctgcctttatgtaattggcctacatagttgaatcatgttttcttttg-cggtgttggaatgg--tggcagGTCTTTAACAATAGTCCTGATGAAACCGCATACTTCCGCATGTTGCTAAACCGGGAAAACATTTCAAATGCAATTGTCATGATCCAACCTTCTCTGACGT
upper sequence: GLYMA18G00670.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ32207 (Selaginella moellendorffii), 3'ss of exon 8
gtaccttttgttgtaatttacttcctgtcctgcttttcaaacttcatttaactttgtcagtgt-tgaaatgtg--ttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGACAGGGAAAATATTAGTAATGCTGCCGTTATGATTCAGCCGTCATTGATAT
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--------------------------gttagtcaccccatacttgtatca--tttgttcgtgtctcaagtgctgttttccagGTTTTTAACAACAGTCCAGACGAGACTGCGCACTTCAGAATCCTTTTAGACAGAGAAACAGTGACGAATTCCCTGTTGATGATTCAACCGTCCCTCGTGT
upper sequence: GLYMA18G00670.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ16499 (Selaginella moellendorffii), 3'ss of exon 8
gtaccttttgttgtaatttacttcctgtcctgcttttcaaacttcatttaactttgtcagtgt-tgaaatgtg--ttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGACAGGGAAAATATTAGTAATGCTGCCGTTATGATTCAGCCGTCATTGATAT
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--------------------------gttagtcaccccacacttgcatca--tttgttcgtgtctcaagtgctgttttccagGTTTTTAACAATAGTCCAGACGAGACTGCGCACTTCAGAATCCTTTTAGACAGAGAAACAGTGACGAATTCCCTGTTGATGATTCAACCGTCTCTCGTGTMapped 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|192301189|gb|FG990169.1|FG990169EST: CACTTTTCCCTCAGTTTATGTTCAATCTGCGACGCTCACAGTTTGTACAG GTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGAC
genomic: CACTTTTCCCTCAGTTTATGTTCAATCTGCGACGCTCACAGTTTGTACAGgtaccttttg ... gtgttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGAC
EST:
gi|13252552|gb|BG363455.1|BG363455EST: CACTTTTCCCTCAGTTTATGTTCAATCTGCNACGCTCACAGTTTGTACAG GTTTTTAACAACAGTCCAGATGAGACTGCATATTTCCGCATGTTGTTAGAC
genomic: CACTTTTCCCTCAGTTTATGTTCAATCTGCGACGCTCACAGTTTGTACAGgtaccttttg ... gtgttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtcctgcttttcaaacttcatttaactttgtcagtgttgaaatgtgttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGACAGGGAAAATATTAGTAATGCTGCCGTTATGATTCAGCCGTCATTGATAT
atttaac putative branch site (score: 3)
atttaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccttttgttgtaatttacttcctgtcctgcttttcaaacttcatttaactttgtcagtgttgaaatgtgttggcagGTTTTTAACAACAGTCCAGACGAGACTGCATATTTCCGCATGTTGTTAGACAGGGAAAATATTAGTAATGCTGCCGTTATGATTCAGCCGTCATTGATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC