Sequence
atgc intronic sequence ATGC exonic sequenceACTGATGGGCAAGATTTTTTTACTTCTTATGACGAAGTTTGTGAAAGCTTTGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgttcattaatatatttgaatgtacgataattttagttcttgtttgagaactttagtttctattgtttagctctgcatcaaatctgagattaattta...
Basic information
species | Glycine max |
transcript | GLYMA06G05580.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G54270.1 (Arabidopsis thaliana), 5'ss of exon 3
ACTGATGGGCAAGAT---TTTTTTACTTCTTATGACGAAGTTTGTGAAAGCTTTGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgttcattaatatatttgaatgtacgataattttagttcttgtttgagaactttagtt---tctattgttta-gctctgcatcaaatctga--gattaattta-------
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---GATGGACAGGATGAGTTCTTCACCTCATATGATGAGGTCCATGAGAGCTTTGATGCCATGGGTTTGCAAGAGAATCTTCTTAGGGGTATCTATGCTTACGgtaagtgaa---gaaggtttaaagaaacaacc-ttttgtttgttatgttgggattcctattaactttatcgtatgtgctctttcctgtgattgattggttgatttttttctag
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G13920.2 (Arabidopsis thaliana), 5'ss of exon 3
ACTGATGGGCAAGAT---TTTTTTACTTCTTATGACGAAGTTTGTGAAAGCTTTGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgttcattaatatatttgaatgtacgataattt-tagttcttgtttgagaactttagtttctattgtttagctctgcatcaaatctgagattaattta
|| || |||||| || || || || ||||| || ||| ||| ||||||||||| ||||| | || ||||||||||| |||||||||||||| || ||||||| | | | ||||| | || ||| | || ||| | ||| | || | | | | | ||| ||
---GAGGGACAAGATGAGTTCTTCACATCCTATGATGATGTTCATGAGAGCTTTGATGCCATGGGTCTTCAAGAGAACCTTCTCAGGGGTATTTATGCTTATGgtatgtgtgt--aggaacttgaaaaagctatcttttgtgatttatgtcttagattagaacattatctcatgcgtgcttctgttttttcttag---------
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G54270.2 (Arabidopsis thaliana), 5'ss of exon 3
-ACTGATGGGCAAGAT---TTTTTTACTTCTTATGACGAAGTTTGTGAAAGCTTTGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgttcattaatatatttgaatgtacgataattttagttcttgtttgagaactttagtt---tctattgttta-gctctgcatcaaatctga--gattaattta-------
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TCTCGATGGACAGGATGAGTTCTTCACCTCATATGATGAGGTCCATGAGAGCTTTGATGCCATGGGTTTGCAAGAGAATCTTCTTAGGGgtatctatgcttacggtaagtgaa---gaaggtttaaagaaacaacc-ttttgtttgttatgttgggattcctattaactttatcgtatgtgctctttcctgtgattgattggttgatttttttctag
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G13920.4 (Arabidopsis thaliana), 5'ss of exon 3
-ACTGATGGGCAAGAT---TTTTTTACTTCTTATGACGAAGTTTGTGAAAGCTTTGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgttcattaatatatttgaatgtacgataattt-tagttcttgtttgagaactttagtttctattgtttagctctgcatcaaatctgagattaattta
||| || |||||| || || || || ||||| || ||| ||| ||||||||||| ||||| | || ||||||||||| |||||||||||||| || ||||||| | | | ||||| | || ||| | || ||| | ||| | || | | | | | ||| ||
ACTTGAGGGACAAGATGAGTTCTTCACATCCTATGATGATGTTCATGAGAGCTTTGATGCCATGGGTCTTCAAGAGAACCTTCTCAGGGgtatttatgcttatggtatgtgtgt--aggaacttgaaaaagctatcttttgtgatttatgtcttagattagaacattatctcatgcgtgcttctgttttttcttag---------
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0008g01000.t01 (Vitis vinifera), 5'ss of exon 2
ACTGATGGGCAAGATTTTTTTACTTCTTATGACGAAGTTTGTGAAAGCTTTGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgtt--cattaatatatttgaatgtacgataattttagttcttgtttgaga-actttagtttctattgtttagctctgcatcaaatctgagattaattta
|||||||| |||||||| || || || ||||| || || | |||||| |||||||| ||||| ||||| ||||| || ||||| || |||||||||||||||| || | |||||| | | | ||| | || | | | |||| | || | | || || || || || | || | |
ACTGATGGACAAGATTTCTTCACATCATATGATGAGGTCTATGAAAGTTTTGATGCAATGGGGTTGCAAGAGAATCTCCTGAGAGGCATTTATGCATACGgtagtttacctttaatacctctttaagtagg--aaatatgtctgttgtctaggatagctctcttgaggacattccacttgtcagttgattcaaaat-ggtaaaMapped 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|254324362|gb|GR833787.1|GR833787EST: TGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACG GTTTTGAGAAGCCCTCTGCAATTCAACAAAGGGGGATTGTTCCTTTCTGCA
genomic: TGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgttcat ... ttctgagaagGTTTTGAGAAGCCCTCTGCAATTCAACAAAGGGGGATTGTTCCTTTCTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGATGGGCAAGATTTTTTTACTTCTTATGACGAAGTTTGTGAAAGCTTTGATGCTATGGGATTGCAGGAGAACCTTCTGAGGGGTATTTATGCATACGgtatgttcattaatatatttgaatgtacgataattttagttcttgtttgagaactttagtttctattgtttagctctgcatcaaatctgagattaattta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA