Sequence
atgc intronic sequence ATGC exonic sequenceCTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaatgttcttccatataaatttcatattttgtagttagtatataggctttattttttgaatttgtttttttcattatgcag
Basic information
species | Glycine max |
transcript | GLYMA01G24530.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os05g38150.1 (Oryza sativa), 5'ss of exon 12
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaa-tgttcttccatataaatttcata----ttttgtagttagtatataggct---ttattttttgaatttgtttttttcattatgcag----------------
||||||||||| || ||||| || | || ||||| |||||||||||||| ||||||||||||| ||||| || |||||||||||||| ||||||||||| | | || | | || ||| || | || | | | | | | | || |||||| |||| | ||| || |
CTTGATGATGTCATTGATCTTGTCATTCCAAGAGGAAGTAATAAGCTTGTCTCTCAAATCAAGGCGTCAACTAAGATTCCTGTTCTTGGGCATGCTGgtaaattctgtttgaacttaagttcttaccactcttatggctttattggatgttgagtttttttttctttttgctatttctgacattccatatttccccactgcag
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os01g62900.1 (Oryza sativa), 5'ss of exon 13
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaa---tgttcttccatataaatt----tcatattttgtagttagtat-ataggctttattttttgaatttgtttttttcattatgcag----------------------------------------------------
||||||||||| || ||||| || | || ||||| || |||||||| ||||| || ||||| | | |||| || |||||||||||||||||||||||||| |||| || | |||| ||| | | |||||| ||| |||||| || | | ||| || ||
CTTGATGATGTGATTGATCTTGTAATACCAAGAGGTAGCAATAAGCTCGTTTCCCAGATCAAAGCAGCAACCAAGATTCCTGTTCTTGGTCATGCTGgtaagcttgtttttgttattgaattcttgtcactaaatattactagtatgataatggttatttattttgcataaactaagcataatacatttcctttttttattatgatatacattgaatgaatgttttttttcttctacag
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: AC203754.4_FGT008 (Zea mays), 5'ss of exon 12
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaa---tgttcttccata-taaatttc-------atattt---tgtagttagtatataggctttattttttgaatttgtttttttcattatgcag
||| |||||||||| ||||| || | || |||||||| |||||||| ||||| ||||||||| |||||| || || ||||||||||||||||||||||| | | | | ||| | ||| | |||| | | | | ||| || | ||||| || | || | | ||
CTTCATGATGTAATTGATCTTGTCATTCCAAGAGGCAGCAATAAGCTGGTTTCACAAATCAAGACATCAACTAAGATCCCTGTTCTTGGTCATGCTGgtaaatttatcttccaatagcatgttttggtacaaacatttcactacaatatcaaaatatgcagactagtttgatttctgaatctttcctctatag
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G094309_T01 (Zea mays), 5'ss of exon 5
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaa---tgttcttccata-taaatttc-------atattt---tgtagttagtatataggctttattttttgaatttgtttttttcattatgcag
||| |||||||||| ||||| || | || ||||| || |||||||| ||||| |||||||||| |||||| || || ||||||||||||||||||||||| | | | | ||| | ||| | |||| | | | | ||| || | ||||| || | || | | ||
CTTCATGATGTAATTGATCTTGTCATTCCAAGAGGTAGCAATAAGCTGGTTTCACAAATCAAGGCATCAACTAAGATCCCTGTTCTTGGTCATGCTGgtaaatttatcttccaatagcatgttttggtacaaacatttcactacaatatcaaaatatgcagactagtttgatttctgaatctttcctctatag
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G375504_T03 (Zea mays), 5'ss of exon 12
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaatgtt--cttccatataaatttcatattttgtagttagtatat----aggctttattttttgaatttgtttttttcattatgcag----------
||||||||||| || ||||| || | || |||||||| |||||||| ||||| |||||||| | |||||| || || ||||| || |||||||| ||||| || |||||| ||| || | | | | ||| | | || | | | | | | |||| || | |
CTTGATGATGTCATTGATCTTGTCATTCCAAGAGGCAGCAATAAGCTGGTTTCGCAAATCAAAGCATCAACTAAGATACCTGTCCTCGGTCATGCGGgtaaatttatcttcca-atagtttgtttttggtacaaacagtccactacaatactaaaatatacggactggtttgatttctgaattttttctctatag
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv08s0007g01060.t01 (Vitis vinifera), 5'ss of exon 13
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaatgttcttccatataaatttcatattttgtagttagta---tataggctttattttttgaatttgtttttttcattatgcag
||||||||||| |||||||| ||| ||||||||||||| || || || ||||||||||||||||| ||||| ||||| ||||||||||||||||||||||| | | | | | | | | ||| || | | | || ||| |||||| | | |||| |||
CTTGATGATGTCATAGATCTTGTGATCCCTAGAGGCAGCAACAAACTCGTTTCTCAAATCAAGGATTCAACTAAAATCCCTGTTCTTGGTCATGCTGgtaagataaat---tgtgactctttaaatttataatctgcaaactagaggttttattata-gtgtttgctttcag----------
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ29127 (Selaginella moellendorffii), 5'ss of exon 13
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaatgttcttccatat--aaatttc-atattttgtagttagtatataggctttattttttgaatttgtttttttcattatgcag
||||| ||||| || || || || | || ||||| || ||||| |||||||| ||||||||||| || || ||||||||||| || || ||||| |||| | ||| | ||| | | | ||||| | | | ||| | | || | |||
CTTGACGATGTTATTGACCTCGTTATACCAAGAGGAAGCAATAAACTTGTTTCACAAATCAAGGAGTCTACGAAAATTCCTGTGCTGGGCCATGCCGgtatgctacttttgtcctcgcattgcgaaagtttgtcctcgcattgcgaaagctgtttctgacacatggaaaaccctttag----
upper sequence: GLYMA01G24530.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ17662 (Selaginella moellendorffii), 5'ss of exon 13
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaatgttcttccatat--aaatttc-atattttgtagttagtatataggctttattttttgaatttgtttttttcattatgcag--------------------
||||| ||||| || || || || | || ||||| || ||||| |||||||| ||||||||||| || || ||||||||||| || || ||||| |||| | ||| | ||| | | | ||||| | | | ||| | | || ||| |
CTTGACGATGTTATTGACCTCGTTATACCAAGAGGAAGCAATAAACTTGTTTCACAAATCAAGGAGTCTACGAAAATTCCTGTGCTGGGCCATGCCGgtatgctacttttgtcctcgcattgcgaaaatttgtcctcgcgttgcgaaagctgtttctgacacatggaaaaccttttagatggtatctgccatgtctacgtagMapped 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|207759672|gb|GD734003.1|GD734003EST: CAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTG ATGGAATTTGTCATGTATATGTTGACAAGTCTGCTAATATTGATATGGCAA
genomic: CAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaatgttct ... cattatgcagATGGAATTTGTCATGTATATGTTGACAAGTCTGCTAATATTGATATGGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTGATGATGTAATAGATCTAGTGGTCCCTAGAGGCAGTAATAAGCTTGTTTCTCAAATCAAGGAATCAACAAAAATTCCTGTTCTTGGTCATGCTGgtaatgttcttccatataaatttcatattttgtagttagtatataggctttattttttgaatttgtttttttcattatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG