Sequence
atgc intronic sequence ATGC exonic sequenceTGCTGTTGCGATGGTGTATTTTGTTCAAGGTGTTTTAGGGCTTGCAAGACTGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatcatggtttaattaatatgcagttaatgtacatcttttgattgatttcatttgaattttatagctacagctcaattacctaatccaaggtgt...
Basic information
species | Glycine max |
transcript | GLYMA10G39220.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G39220.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os07g07654.1 (Oryza sativa), 5'ss of exon 2
TGCTGTTGCGATGGTGTATTTTGTTCAAGGTGTTTTAGGGCTTGCAAGACTGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatcatggtttaattaatatgcagttaatgtacatcttttgattgattt---catttgaattttatagctacagctcaattacctaatcca-aggtgt---------------------------------
|| ||||| | ||||||||||| ||||| |||||||| ||||| |||| ||||||| |||||||||||||||||| | ||| | || ||||| ||||| ||| || | ||| | ||| || | | | || ||| |||| | | ||| | ||||| | | || | | | |||| |
GGCAGTTGCAACTGTGTATTTTGTGCAAGGGGTTTTAGGCCTTGCTCGACTTGCTGTGAGTTTTTACTTAAAAGATGATCTTCATCTTGATCCTGCAGAGgtctgtgttcccc-tctaaatgctatcttttttgttttggtattggtatttatttatgtaatctcattccacccatacag-taagttgattcctatataggtcttgataagtgatcaatatgttttctcccatgtag
upper sequence: GLYMA10G39220.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g58080.1 (Oryza sativa), 5'ss of exon 2
TGCTGTTGCGATGGTGTATTTTGTTCAAGGTGTTTTAGGGCTTGCAAGACTGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatca--tggtttaattaatatgcagttaatgtacat-----cttttg---attgatttcatttgaattttatagctacagctca-----attacctaatccaaggtgt--------------------------------------------------------------------------------
|||||||| || || ||||| || ||||| ||||| || ||||| || || ||||||| ||||||||||||||||||| | ||| | || || || ||||| || || | || | | | | ||| || ||| |||||| || || ||||||| || || || | ||| | || | | ||| ||
GGCTGTTGCTATCGTTTATTTCGTGCAAGGAGTTTTGGGTCTTGCGAGGCTTGCTGTGAGCTTTTACTTAAAAGATGATCTTCATCTTGATCCAGCAGAGgtatggtggcaactccttcagtctctttcgagtctctgggcatgcgtgcttttgtagttttgttccatttgagcttagcag-tagggttcatggaaaatatttcttagaagttggaaagatattttttctctttgaacattttaactcttggataatatgtgttggcacagattaagacaaattgtgttgtctag
upper sequence: GLYMA10G39220.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G469469_T01 (Zea mays), 5'ss of exon 2
TGCTGTTGCGATGGTGTATTTTGTTCAAGGTGTTTTAGGGCTTGCAAGACTGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatcatggtttaattaatatgcagt--taatgtacatcttttgat--tgatttcatttgaattttatagctacagctcaattacctaatccaaggtgt-------------------------------------------------------
|| ||||| || || |||||||| ||||| ||| | || |||||| | || ||||||| ||||||||||||||||||| | ||| | || || |||||||||||| | | || || | | | | | |||| | | | || |||| ||| || |||| |||| | || || || |
GGCAGTTGCCATTGTCTATTTTGTGCAAGGGGTTCTGGGTCTTGCACGGCTTGCTGTGAGCTTTTACTTAAAAGATGATCTCCATCTAGATCCAGCTGAGgtgtgtgttgctcattccttttccaggttttcctgtcctccatccatgcaccatatttgtatttagattgtagagctcagttcttgttacatgatgtaacgtttccgctgtttagttaataggtgctgttaggggactaaaccggtttctttaatatag
upper sequence: GLYMA10G39220.1 (Glycine max), 5'ss of exon 2
lower sequence: AT2G32040.1 (Arabidopsis thaliana), 5'ss of exon 2
TGCTGTTGCGATGGTGTATTTTGTTCAAGGTGTTTTAGGGCTTGCAAGACTGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatcatggtttaattaatatgcagtta-atgtacatcttttgattgatttcatttgaattttatagctacagctcaattacctaatccaaggtgt
|||||| || ||||||||||||||||||||||||||||| || || || || ||||| | || || ||||||||||| |||||| | || ||||||||||| || | || || | | | | | | |||| || || | | || | |||| || | |
TGCTGTAGCAATGGTGTATTTTGTTCAAGGTGTTTTAGGACTCGCTAGGCTCGCTGTTAGTTTCTATTTAAAAGATGACTTGCATCTTGATCCTGCTGAGgtatgctttttgtagttccttgttggactttcatgggaatatctctttataggctgac----aaatatatacctcttgactag------------------
upper sequence: GLYMA10G39220.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv05s0020g03660.t01 (Vitis vinifera), 5'ss of exon 2
TGCTGTTGCGATGGTGTATTTTGTTCAAGGTGTTTTAGGGCTTGCAAGACTGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatcatgg-tttaattaatatgc--agttaatgtacatcttttgattgatttcatttgaattttatagctacagctcaattacctaatccaaggtgt
||| ||||| ||||| |||||||| |||||||||||||| ||| | || || ||||| | ||||| |||||||||||| ||||| | || ||||| ||||||||| ||| | ||| || ||| | |||| ||| | || | || | ||| | | || | || | ||| |
TGCCGTTGCCATGGTATATTTTGTCCAAGGTGTTTTAGGCCTTTCTAGGCTTGCTGTCAGTTTTTATTTAAAAGATGATCTGCATCTAGATCCTGCAGAGgtgtgtgatcttaactttcataaattttttaggttatggtagaactcat--ttagtcgcatataatccatactattttctttctttgctttaactttttagg-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|7145930|gb|AW507852.1|AW507852EST: TGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAG GCAGCTGTGCTTTCTGGTTTTTCTGCATTGCCGTGGCTTGTCAAACCTCTN
genomic: TGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatc ... gtttgactagGCAGCTGTGCTTTCTGGTTTTTCTGCATTGCCGTGGCTTGTCAAACCTCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTGTTGCGATGGTGTATTTTGTTCAAGGTGTTTTAGGGCTTGCAAGACTGGCTGTGAACTTTTACTTAAAAGATGATTTGCATTTGGACCCTGCTGAGgtgtgtcatcatggtttaattaatatgcagttaatgtacatcttttgattgatttcatttgaattttatagctacagctcaattacctaatccaaggtgt
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