Sequence
atgc intronic sequence ATGC exonic sequenceATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtgctgtgttcatgaggaattccttcctctcccaccctcgtctcactcagttttttttaaactcttgtctcatgttttaatatctgtgtccag
Basic information
species | Glycine max |
transcript | GLYMA13G35580.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G35580.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G163081_T04 (Zea mays), 5'ss of exon 4
----ATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtgctgtgttcatgagga--attccttcctctcccaccctcgtct----cactcagttttttttaaactcttgtctcatgttttaatatctgtgtccag
||||||||||| || || || ||| | ||||||||| | || || || |||||| |||||||||||||||||||||| || || || || |||||||| ||| | | | |||| | || | | | | | | | | | | | || | || || | ||| || ||
AATCATATCTGCTAGTATAGCGGGTGATATGGTTCTTGCTTCTGCCTACTCGCATGAGTTGCCACGATATGGTCTTGAAGTTGGTCTGACCAACTATGCAgctggtattttttccatggaaataatgtataaattgcatattatattttaatgtatttatatattctctaaatcaacacccatcttgtag-------------
upper sequence: GLYMA13G35580.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G163081_T03 (Zea mays), 5'ss of exon 4
ATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtgctgtgttcatg--aggaattccttcctctcccaccctcgtct----cactcagttttttttaaactcttgtctcatgttttaatatctgtgtccag
||||||||||| || || || ||| | ||||||||| | || || || |||||| |||||||||||||||||||||| || || || || |||||||| ||| | | | |||| | ||| | | | | | | | | | | | || | || || | ||| || ||
ATATCTGCTAGTATAGCGGGTGATATGGTTCTTGCTTCTGCCTACTCGCATGAGTTGCCACGATATGGTCTTGAAGTTGGTCTGACCAACTATGCAGCTGgtattttttccatggaaataatgtataaattgcatattatattttaatgtatttatatattctctaaatcaacacccatcttgtag-------------
upper sequence: GLYMA13G35580.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G815894_T03 (Zea mays), 5'ss of exon 4
ATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtg--ctgtgttcatgaggaattccttcctctcccaccctcgtctcactcagttttttttaaactcttgtctcatgttttaatatctgtgtccag
|| |||||||| || || || ||| | ||||||||| | || || || |||||| |||||||||||||||||||||| || || || || |||||||| ||| | ||| || ||| | | | || | | | ||| | | | | || || | ||| || | ||
ATCTCTGCTAGTATAGCAGGTGATATGGTTCTTGCTTCTGCTTACTCGCATGAGTTGCCACGATATGGTCTTGAAGTTGGTCTGACCAACTATGCAGCTGgtaatttcccttctggaaatattgtgtaaattgcatattgtaccttaatgaatttatat-attcactagttcaactgcttacactcatcttgtag
upper sequence: GLYMA13G35580.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G090738_T01 (Zea mays), 5'ss of exon 4
ATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtgc---tgtgttcatgaggaattccttcctctcccaccctcgtctcactcagttttttttaaactcttgtctcatgttttaatatctgtgtccag
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GTATCTGCAAGTATCACGGGTGATATTATTCTTGCTGCTGCATATTCCCGTGAGCTGCCACGATACGGTCTAGAAGTTGGTCTGACCAACTATGCTGCAGgtatatttatgtctgcaaagaatg--taaattgtctattgttactaagcaca-tatattttgtattgctaactcct-tgcccacatct---tctag
upper sequence: GLYMA13G35580.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv00s0174g00190.t01 (Vitis vinifera), 5'ss of exon 5
ATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtgctgtgttcatgaggaattccttcctctcccaccctcgtctcactcagttttttttaaactcttgtctcatgttttaatatctgtgtccag
||||||||||| ||||| || ||| | |||||||| | || ||||| ||||| ||||| | ||||| |||||||| || ||||||||||| || |||||| | | || | ||| | | || | || | | ||| || | || | || | |
ATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTGAAGTGGGTCTTACAAATTACGCGGCAGgta-tatatttactctccattagtctatatcaccttct-atatgtggaagtattctcactgcttctatcatgagcatag--------------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|193679937|gb|FK622009.1|FK622009EST: TGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAG CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTC
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtgctgtgtt ... ctgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTGAAGTAGGACTTACAAATTATGCAGCAGgtgctgtgttcatgaggaattccttcctctcccaccctcgtctcactcagttttttttaaactcttgtctcatgttttaatatctgtgtccag
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG