Sequence
atgc intronic sequence ATGC exonic sequenceCATTGTTTATTATTACTTTCTATGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttatctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac...
Basic information
species | Glycine max |
transcript | GLYMA02G13860.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G137541_T01 (Zea mays), 5'ss of exon 4
CATTGTTTATTATTACTTTCTATGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaa--------aacttatctccctatttg--tccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctg--cttaagttcagtac-----------------------------------------------------------------------------
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-------------------------------GTCACTGGCAAGGCGGTGATGCTTGACGAGATCATCAACTACGTTCAGTCCCTGCAAAGACAAGTTGAGgtaataacaaacatcccccccaatatatactgagacctgaatcaagttgtcatttgcaatagaggaagtagaacagc--tagacactgagaccctgaatatgaacacagttcctctttctacaaaaccctcgttacatacatacataccgatggcaggcacatcaaaacactgaacgaatctcttgcag
upper sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G818643_T02 (Zea mays), 5'ss of exon 3
CATTGTTTATTATTACTTTCTAT--GCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttatctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac-------
| | || || || || | | |||||||||| ||||| || ||||| || || |||||||||||||| ||||| || ||| |||| || |||||| || | || ||| | | | | ||| | ||| || ||| | || | | | | | || ||| | | ||||
--CAAATGAACATCTCTGTCCATTGGAATCCAGGTCACTGGGAAGGCGGTGATGCTTGACGAGATCATCAACTATGTCCAGTCCCTGCAAAGACAAGTCGAGgta---atcagtaa-cttgtatgttaaaatacgcacaactttgtctcaa-tcaag--gcttagctacgaaccaagtcttcatttggaagagaggaagtagaatcgct
upper sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
lower sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 5
CATTGTTTATTATTACTTTCTATGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttatctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac
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-------------------------------GTGACTGGGAAGGCAGTTATGCTTGACGAAATCATAAACTACGTACAATCACTACAACGCCAAGTTGAGgtatgcc----gtttcctaattctcaacgaggt-gctctttgtgtttgcttcttgtaatcaattc-ttttgctcatttctcttttgcttaaa--cag---
upper sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
lower sequence: AT1G26260.2 (Arabidopsis thaliana), 5'ss of exon 5
CATTGTTTATTATTACTTTCTATGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaactt----atctccctatttgtccacttgtgattcttaag---tcatgtaactgatttgcactgtatattttgatt-ctgcttaagttcagtac--
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-------------------------------GTGACTGGTAAGGCAGTTATGCTCGATGAAATCATTAACTATGTGCAATCACTTCAATGCCAAATCGAGgtttccctttgtttgctttgggaatttcctattttcttagtgtctgttcttgagacttcatttaattagcaacctcactttgtgttagttacttcttccatgcatttcag
upper sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv01s0010g00740.t01 (Vitis vinifera), 5'ss of exon 5
CATTGTTTATTATTACTTTCTATGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttat-ctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac--
|||||||||||||| || ||||||||||||||||| |||||||| || ||||||||||| ||||||||||||||| || | ||| || || ||| | || || |||| || | || | | ||||| || | | || | | | | ||
-------------------------------GTCACTGGCAAGGCGGTCATGCTAGATGAAATCATTAACTATGTGCAATCACTTCAACGGCAGGTTGAGgtatggtattaaggatctatgttctctttttcctccctattggttctcaattgatctggtttatttgttctat---cctgcatcttaaatgtctccgaaacat
upper sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
lower sequence: PP1S68_190V6.1 (Physcomitrella patens), 5'ss of exon 3
CATTGTTTATTATTACTTTCTA-TGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaa---aaacttatctccctatttgtccacttgtg---attcttaagtcatgtaactgatttgcactg----tatattttgattctgc-ttaagtt---cagtac---------------------
|| | | ||| | ||||| ||||||||||| ||||| || || |||||||||||||| || || || |||||||| ||||| ||||| | | | | | | | || | | | || || | || || || || | || | ||| | | | || |||| ||||
-CCTGCAGGACCTCGTACCCGGCTGCCGCAAAGTCACCGGCAAGGCAGTCATGCTTGACGAGATCATCAACTATGTTCAATCCCTCCAACGACAAGTTGAAgtatgtctcttacccattttcaacgcactgctaatgctattccattcatgtcttaggcacccttcttgttatcgctagtgatgaattgtagtctagtattgagttgtatcgtacactttgttatcttttttacag
upper sequence: GLYMA02G13860.3 (Glycine max), 5'ss of exon 5
lower sequence: PP1S69_95V6.1 (Physcomitrella patens), 5'ss of exon 2
CATTGTTTATTATTACTTTCTA-TGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttatctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac----------------
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-CTTGCAGGACCTTGTTCCTGGCTGCCGCAAAGTCACTGGCAAAGCAGTCATGCTCGATGAAATCATCAATTACGTCCAGTCCCTCCAACGTCAAGTCGAGgtacatccctca----ttctccgccgttctatacacaattgaaggtggtgatagggatctgctgtaattcatatcaggttatgatg-ttaacttccacattttttttgtgttgcagMapped 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|15814049|gb|BI786324.1|BI786324EST: TGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAG TTTTTGTCTATGAAACTTGCTACAGTAAATCCACGGCTGGATTTTAATATT
genomic: TGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatga ... catttggcagTTTTTGTCTATGAAACTTGCTACAGTAAATCCACGGCTGGATTTTAATATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTGTTTATTATTACTTTCTATGCTTTTAGGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAGgtatggatgaaaaaacttatctccctatttgtccacttgtgattcttaagtcatgtaactgatttgcactgtatattttgattctgcttaagttcagtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctcccta