Sequence
atgc intronic sequence ATGC exonic sequenceCACCAGAATCAAAGGCTACAACAGAGAGCGTTTATAATGCTGCATTGGCACTTGGCATAGCTAATCAACTTACCAACATTCTCAGAGACGTTGGAGAAGAgtaaggatctttaaatgcaataatatcttgtatttgaacctaaatatagaagttagaattacaactcaccttgtagtttaagtatcagtgacattcgttc...
Basic information
species | Glycine max |
transcript | GLYMA08G41890.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G41890.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G149317_T03 (Zea mays), 5'ss of exon 3
CACCAGAATCAAAGGCTACAACAGAGAGCGTTTATAATGCTGCATTGGCACTTGGCATAGCTAATCAACTTACCAACATTCTCAGAGACGTTGGAGAAGAgtaaggat---ctttaaatgcaa-taat--atcttgtatttgaacctaaatatagaagttagaattacaactcaccttgtagtttaagtatcagtgacattcgttc
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CTCCCGACTCCAAGGCCTCGACCGAGAGCGTGTACAATGCTGCTCTGGCTCTCGGCATCGCTAACCAGCTGACGAATATTCTCAGAGACGTGGGCGAAGAgtaagtgctggctttattcacagctaactaagcatatatataattctatttttacatcatctgatcgatacgcccacatctgtttgat-----acggcgcccatt-
upper sequence: GLYMA08G41890.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv12s0028g00960.t01 (Vitis vinifera), 5'ss of exon 4
CACCAGAATCAAAGGCTACAACAGAGAGCGTTTATAATGCTGCATTGGCACTTGGCATAGCTAATCAACTTACCAACATTCTCAGAGACGTTGGAGAAGAgtaaggatctttaaatgcaataatatcttgt-atttgaacctaaatatagaagttagaattacaactcaccttgtagtttaagtatcagtgacattcgttc
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CACCAGATTCAAAGGCCTCAACAGAGAGTGTTTACAATGCTGCATTAGCCCTTGGGATAGCCAATCAGCTCACTAACATACTCAGAGATGTCGGGGAGGAgtaagtttcttatgatgcagaaatctccactgaactaggaagaaaaattcaattctttgtcatg-ttttctttgctccaagataatcattcgtaattggggMapped 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|11412988|gb|BF424999.1|BF424999EST: CTTGGCATAGCTAATCAACTTACCAACATTCTCAGAGACGTTGGAGAAGA TGCAAGAAGAGGAAGAGTATATCTTCCACAAGATGAATTGGCACAAGCTGG
genomic: CTTGGCATAGCTAATCAACTTACCAACATTCTCAGAGACGTTGGAGAAGAgtaaggatct ... atcattatagTGCAAGAAGAGGAAGAGTATATCTTCCACAAGATGAATTGGCACAAGCTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACCAGAATCAAAGGCTACAACAGAGAGCGTTTATAATGCTGCATTGGCACTTGGCATAGCTAATCAACTTACCAACATTCTCAGAGACGTTGGAGAAGAgtaaggatctttaaatgcaataatatcttgtatttgaacctaaatatagaagttagaattacaactcaccttgtagtttaagtatcagtgacattcgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA