Sequence
atgc intronic sequence ATGC exonic sequencegtagtttaagcttatcattggttttatttaatatatattcgtatgatcttggtctcacttatacttcctaaaactcttcttcaacccagGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGGG
Basic information
species | Glycine max |
transcript | GLYMA10G03740.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G03740.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g06740.1 (Oryza sativa), 3'ss of exon 5
gtagtttaagcttatcattg-gttttatttaatatatattcgtatgatcttggtctcacttatacttcctaaaactcttc------ttcaac----ccagGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGGG
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gtaggttaagcaatcaatcaagtgatacttgacttcgagtt-tctcagctttgcgactctttaacatgttgagcttctgcactgtatttatgtttgctagGTTGATGAGTATTCTCGAACCTCAGTTGATTCAATTTGGGCAGTGGGAGATGTTACTGATAGGGTCAACCTGACACCAGTTGCACTTATGGAAGGTGGTG
upper sequence: GLYMA10G03740.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G54660.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------gtagtttaagcttatcattg--gttttatttaatatatattcgtatgatcttggtctcacttatactt----cctaaaactcttcttcaaccc----agGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGGG
|| ||| | || ||| | || | | | | || | || | | ||| | || | | || ||| ||||||| ||||| || || ||||| ||||| || || ||||| ||||| |||||||| || | || ||| | || ||||||||||||||||||||||| |
gtatgatccagtgttttacctagtttttttgtcacttaggatttctattattgcattgtgcacagttctcttgttatacctggttacttcttgtgattgtgctccatgtttccactttttttttgtaagGTTGACGAATATTCACAGACATCTGTTCCATCCATCTGGGCTGTTGGGGATGTTACTGACCGAATCAATTTGACTCCAGTTGCTTTGATGGAGGGAGGTG
upper sequence: GLYMA10G03740.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 5
---gtagtttaagcttatcattggttttatttaatatatattcgtatgatcttggtctcacttatacttcctaaaactcttcttcaacc----cagGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGGG
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gtaagaatatttgattctc-tgagatttgttctgc-tccattcttgtgatttttgtaccttgtgctttttctcatacactcttattgctttctcagGTTGATGAATTCTCCCGTACATCAGTTCCTTCCATTTGGGCAGTTGGAGATGTAACAGATAGAATAAATTTGACTCCAGTTGCTTTGATGGAGGGAGGAGMapped 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|192299302|gb|FG988702.1|FG988702EST: TAGGCCTGGAGTCTGTTGGTGTGAAAATAGCTAAAGATGGAGCTATAGAG GTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGAT
genomic: TAGGCCTGGAGTCTGTTGGTGTGAAAATAGCTAAAGATGGAGCTATAGAGgtagtttaag ... ttcaacccagGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGAT
EST:
gi|11273725|gb|BF324101.1|BF324101EST: TAGGCCTGGAGTCTGTTGGTGTGAAAATAGCTAAAGATGGAGCTATAGAG GTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGAT
genomic: TAGGCCTGGAGTCTGTTGGTGTGAAAATAGCTAAAGATGGAGCTATAGAGgtagtttaag ... ttcaacccagGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattcgtatgatcttggtctcacttatacttcctaaaactcttcttcaacccagGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGGG
tcctaaa putative branch site (score: 2)
ctcttcttcaaccc CT-rich tract
ttatactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtttaagcttatcattggttttatttaatatatattcgtatgatcttggtctcacttatacttcctaaaactcttcttcaacccagGTTGATGAATACTCTCAAACATCAGTTCCTTCAATTTGGGCAGTTGGAGATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG