Sequence
atgc intronic sequence ATGC exonic sequenceCCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgtaattctttatatatcctcatattcatctatgcttcttgcttattacag
Basic information
species | Glycine max |
transcript | GLYMA06G01520.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 5'ss of exon 5
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgtaattctttatatatcctcatattcatctatgcttcttgcttattacag----
||||||| | ||||||||||| ||||| |||||||| || || ||||| ||||| || ||||| ||||||||||| ||||||||||| ||||| || |||||| | | || | ||| | | || ||| || | || | | | ||||||| |
CCTCCTTACTCAAATTGAGAGATATTTGAAACAAGCTATAGTTGATAAGAATCCTGTGGTTGCTAGTGCTGCTCTTGTTAGTGGCATCCATCTGCTTCAGgta-cacttctat--agttctatacgaaaaaaaacataattcttttcggaagtcaaaaactgt-acttattatatgcag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 5'ss of exon 5
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatac---taattt----ccttttgtaattctttat-atatcc----tcatattcatctatgcttcttgcttattacag---------------
|| || | |||||||| || ||||| || ||||||||||| || || || || ||||||||||| || || || ||||||||||| | | || |||||| | | || || | | | || || |||| ||| | | || || || | | | | ||| || | | |
ACTTCTAACCCAAATTGAAAGATATTTGAAGCAAGCCATTGTTGACAAGAACCCTGTTGTTGCAAGCGCGGCCCTTGTTAGTGGCATCTACTTGCTTCAGgtatgtgcaaaacgtttagtctttgcctttatgcaattgcatattacagccagacccaaatccttacaaatgttttgtttgt-atggttttattctgagcag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 5
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgtaattct-ttatatatcctcatattcatctatgcttct-tgcttattacag--------------------------------
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CCTTCTCACCCAAATCGAGAGGTATTTGAAGCAAGCCATTGTTGACAAGAATCCTGTTGTTGCCAGTGCGGCCCTTGTTAGTGGCATCTACTTGCTTCAAgtat--gtcctgc-agttatattttgtgctccagttggatatattgttactagttggtgcagctatagatatttttattatgttttccacatgtttgtattattggcag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G036034_T01 (Zea mays), 5'ss of exon 5
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatacta-atttccttttgtaattctttatatatcctcatattcatctatgcttcttgcttattacag-------------------
|| || | ||||| ||||||||||| || ||||||||||| || || ||||| |||||||| ||||| || || ||||||||||| | | || || ||| | || | || | | | || | | | | || | | || || | || ||
TCTTCTCACCCAAATCGAGAGGTATTTGAAGCAAGCCATTGTTGACAAGAATCCTGTTGTTGCCAGTGCAGCCCTTGTTAGTGGCATCTACTTGCTTCAAgtatgtcctgtgctccacttggatatattgttactagtttgtggcagctttagttcttttttattatgttttccacatgtttgtactattggcag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G012501_T03 (Zea mays), 5'ss of exon 4
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgta---attctttatatatcctcatattcatctatgcttcttg--cttat-tacag-------
||| || | ||||||||||| ||||| || ||||| ||||| || || || ||||| ||||| |||||| |||| ||||||||||| || || ||||||| ||| |||| | | | | | | || || || | || | | | ||| || || || | ||||
CCTACTAACTCAAATTGAGAGATATTTGAAGCAAGCTATTGTTGACAAGAACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactag-cataattctatgcatatataccgatctcttgtttaaggttggttaactgtatcttttgtgagtttgtctacactctacag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 4
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagt--catactaatttccttttgtaattcttta--tatatcctcatattcatctatgcttcttgcttattacag
||| || | || |||||| | || || |||||||||||||| ||||| ||||| |||||| ||||||| ||| |||| ||||| |||| | ||| ||||| | || || || || ||| | ||| | || | || | || | | | ||||| || |||
CCTTCTCACTCAGATTGAGCGATACTTGAAACAAGCCATTGTGGATAAGAATCCCGTTGTTTCAAGTGCAGCTTTAGTCAGTGGGCTTCACTTGCTCAAGgtaccttttacacaccaaaactattaggtagcttcttaattgtaatgttatgcttatattcgtatattgctgttttcag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 5
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgta--atagtcatactaatttccttttgtaattctttatatatcctcatattcatctatgcttcttgcttattacag---------------------
||| || | || |||||| | || || |||||||| || || || || || || |||||||||||||| ||||| || ||||| |||||||| ||||||||| || | | | |||| | ||||| | ||||| | | ||| || | || || | |
CCTTCTCACCCAGATTGAGCGATACTTGAAACAAGCAATAGTTGACAAGAACCCTGTTGTTGCAAGTGCAGCTCTTGTCAGTGGAATTCATCTTCTCCAGgtacaattgggttgtgtgtagattttttttattctatttatatatttaaattatcctcttacatgctctaataatatgattattatttttttggatag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ15122 (Selaginella moellendorffii), 5'ss of exon 5
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgtaattctttatatatcctcatattcatctatgcttcttgcttattacag
||||| || || ||||| || | || || ||| | || ||||| ||||| |||||||| ||||||||| | || |||||||||||||| || ||||| | | | | ||| ||| || | || | ||| | |
TCTCCTGGGTCAGATCGAGAGATACCTCAAGCAGGCCGTGGTTGATAAGAATCCGGTTGTTGCTAGTGCTGCTATTGTCAGTGGCATTCATCTTCTACAGgtg-tggctgcatt------cttcccaggttcatt-tggatttaagttttctttcag------------------
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ08461 (Selaginella moellendorffii), 5'ss of exon 5
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgtaattctttatatatcctcatattcatctatgcttcttgcttattacag
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TCTCCTGGGTCAGATCGAGAGATACCTCAAGCAGGCCGTGGTTGATAAGAATCCGGTTGTTGCTAGTGCTGCTATTGTCAGTGGCATTCATCTTCTACAGgtg-tggttgcatt---cttcccaggttcatttggatttaagttttttttcag----------------------Mapped 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|193605010|gb|FK556324.1|FK556324EST: ATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAG ACGAATCCTGAAATTGTAAAAAGATGGAGCAATGAAGTTCAGGAAGCTGTT
genomic: ATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtca ... cttattacagACGAATCCTGAAATTGTAAAAAGATGGAGCAATGAAGTTCAGGAAGCTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgtaattctttatatatcctcatattcatctatgcttcttgcttattacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT