Sequence
atgc intronic sequence ATGC exonic sequenceGTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttttatgagtcttaataagaagaacttattatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
Basic information
species | Glycine max |
transcript | GLYMA05G36600.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g02410.1 (Oryza sativa), 5'ss of exon 4
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttttatgagtcttaataagaagaactta-ttatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
|| ||||||||||| ||||| ||||| ||||| ||||||||||| ||||| || ||||| |||||||| | || || ||||| || ||||||||||||||| || | |||| ||| | | || || | | || |||| || | | | | | | | | | | |||| | |||| || ||| |
GTCTTTGACCTTGGTGGTGGGACATTCGATGTCAGTATCTTGACCATTGACAACGGTGTGTTTGAGGTGTTGGCCACCAATGGTGACACTCATCTTGGAGgtatgactgcttttattt---gcccttaggtactaaatatctgcttctgtacaacatcacagt------tgtagagtactgtagtttgat-tcaatgattttcatgcaac--------------
upper sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 4
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgaga-attttttttttttatgagtcttaataagaagaacttattatgtagaaaaatat-attattctttccac-caaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
|| ||||||||||| ||||| || |||||||| ||||||||||| |||||||| ||||| |||||||| || || || ||||| || || |||||||||||| ||| || | | | ||| | | | | | || ||| | ||| || || || | | | || | | |||| | |||
GTCTTTGACCTTGGTGGTGGTACTTTTGATGTCAGTATCTTGACCATTGATAACGGTGTGTTTGAGGTGCTGGCCACCAATGGTGACACCCATCTTGGAGgtaagagatagctatcctatattattttcagatgcttgtgtttgatatattaaaactcatgatgatgccatgtattcataggatttgttgatctgaatct--------------------------
upper sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G114793_T01 (Zea mays), 5'ss of exon 4
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttttatgagtcttaataagaagaacttattatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
|| ||||||||||| ||||| || |||||||| ||||||||||| ||||| || ||||| |||||||| || || || ||||| || ||||||||||||||| ||| |||| ||| | | | | | | || | | || | ||| | | || ||| | || | || ||| | | | | | |
GTCTTTGACCTTGGTGGTGGTACTTTTGATGTCAGTATCTTGACCATTGACAACGGTGTGTTTGAGGTGCTGGCCACCAATGGTGACACTCATCTTGGAGgtaagagaattttcccattaaaactatctagctatcccatgcactacg-acaatgaaatacttctgatt-------attgtactattatcttattaccagatgcttat---------------
upper sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G28540.1 (Arabidopsis thaliana), 5'ss of exon 4
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaatttttttttttt--atgagtcttaataagaagaact-tattatgtagaaaaatat-attattctt-tccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag------------------------------------------
|| ||||| ||||| ||||| || |||||||| ||| ||||||| |||||||| || || ||||||||||| | |||||||| || ||||| | |||||| | | || | |||| | | | | | | | | || || ||| || ||| | | || || | | | ||| || | | ||
GTGTTTGATCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaatatacttgtgaccaggaatgaattgttttgaattgcattgtgttcaataacaaatgattgctatgccaatgcaataagctaaacatagtcaataacatgtgtcagaatggagggattgttttagtgtgatgttggtggtaaccttttgttgttatgatctgcgcag
upper sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttttatgagtcttaataagaagaacttattatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
|| ||||||||||| ||||| || |||||||| ||| ||||||| |||||||| || || ||||||||||| | |||||||| || ||||| | |||||| | | | || ||| ||| | | || | | || ||| ||| |||| | ||| | || |||| ||||| || |
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaa--------tacttgtgaccacgaatgaattgttctgaattgcattaagaatgaattgttctg--aattgcattgtgttcaataacaaatgattgctgtgccaat-------------
upper sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 4
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttt-tatgagtcttaataagaagaacttattatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
|| ||||| ||||| ||||| ||||||||||| |||||||||||||| || ||||||||||||||||||||||| || |||||||| |||||||| |||||| || ||| || || | |||| | | | || || | | || || ||| ||| | | | | | || ||| | | |
GTGTTTGATCTTGGTGGTGGTACATTTGATGTCAGTATCTTGACAATCGACAATGGTGTTTTTGAGGTTCTTGCCACTAATGGAGACACTCATCTGGGAGgtaagcattgcttccttggtccctaccttatttttgtgcattttttcctttgtaagattagttacggttt--aaggattcttggtgtgttgtagagacctct----------------------
upper sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 4
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttttatgagtcttaataagaagaacttattatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
|||||||||||||| |||||||| || ||||| || |||||||| ||||| ||||||||||| ||||||||||||||||||||||| |||||| | ||||||||| |||||||| | | ||| || | | || || | ||| | | ||| | ||| | | | | ||| ||||| | || ||| |||
GTTTTTGACCTTGGTGGTGGAACCTTCGATGTCAGCATCTTGACTATTGACAATGGTGTTTTCGAGGTTCTTGCTACAAATGGAGACACTCATTTGGGAGgtgaggatttttttctctactgatgctctttcatctttgctctttgcacattgaaagaaa--atttacgagaggaaagt-tattatactgtggatgctca--aggttcaattctttcctgcagMapped 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|151402800|gb|EV272613.1|EV272613EST: TAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAG GTGAGGACTTTGATCAGAGAATAATGGAGTACTTCATTAAATTGATCAAGA
genomic: TAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattt ... gccttgccagGTGAGGACTTTGATCAGAGAATAATGGAGTACTTCATTAAATTGATCAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttttatgagtcttaataagaagaacttattatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG