Sequence
atgc intronic sequence ATGC exonic sequenceAGATGCTCAAAAAGAAGCAGAAGTTACTTCAGAGGCTACTGAGAGGGAACTTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACAGGAGCAGgtaatgttttttgttcatgcagttgaaatcacaagttaggtccaaggcatttagagcctgtttgatacttttattgtgatgtaaaatcaacaaaagctgc...
Basic information
species | Glycine max |
transcript | GLYMA17G07040.2 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os08g14460.1 (Oryza sativa), 5'ss of exon 12
AGATGCTCAAAAAGAAGCAGAAGTTACTTCAGAGGCTACTGAGAGGGAACTTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACAGGAGCAGgtaatgttttttgttcatgcag--ttgaaatcacaagttaggtccaaggc---atttag-agcctgtttgatac--ttttattgtgatgtaaa-----atcaacaaaagctgc-----------------------------------
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AGATGCCCAAAAGGGTGCAGAAGTGACATCAGAAGCTACCGAGCGGGAACTTGAACTTGAAGCTCAACTAGTTGAAGCTAGAAGCATTATCCAGGAGCAGgta-tgttgtctattaatctttccttgcattttctgaacggcaatgatgctgaacatggtaatcagtttatcacagttccagtttatagttgacatgcataaatggtagctgccttgactaacctacacttgggaaatgaatatgcag
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os08g14460.3 (Oryza sativa), 5'ss of exon 11
AGATGCTCAAAAAGAAGCAGAAGTTACTTCAGAGGCTACTGAGAGGGAACTTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACAGGAGCAGgtaatgttttttgttcatgcag--ttgaaatcacaagttaggtccaaggc---atttag-agcctgtttg--atacttttattgtgatgtaaa-----atcaacaaaagctgc-----------------------------------
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--------------------AAGTGACATCAGAAGCTACCGAGCGGGAACTTGAACTTGAAGCTCAACTAGTTGAAGCTAGAAGCATTATCCAGGAGCAGgta-tgttgtctattaatctttccttgcattttctgaacggcaatgatgctgaacatggtaatcagtttatcacagttccagtttatagttgacatgcataaatggtagctgccttgactaacctacacttgggaaatgaatatgcag
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM2G147500_T02 (Zea mays), 5'ss of exon 12
AGATGCTCAAAAAGAAGCAGAAGTTACTTCAGAGGCTACTGAGAGGGAACTTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACAGGAGCAGgta-atgttttttgttcatgcagttgaaatcacaagttaggtccaaggcatttagagcctgtttgatacttttattgtgatgtaaaatcaacaaaagctgc
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AGATGCTCAGAAAGGTGCAGAAGTGACTTCTGAGGCAACTGACCGGGAGCTTGAGCTTGAAGCTCAACTGGTTGAAGCAAGAAGCATCATCCAAGAGCAGgtttgtgcatcttatatttgtttatcatttctgaatggaagtactccctccatatgaaacggtaagttgttttggatttttagagtttctatagacagtg-
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 13
lower sequence: Vv11s0052g00890.t01 (Vitis vinifera), 5'ss of exon 13
AGATGCTCAAAAAGAAGCAGAAGTTACTTCAGAGGCTACTGAGAGGGAACTTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACAGGAGCAGgtaatgttttttgttcatgcagttgaaatcacaagttaggtccaaggcatttagagcctgt-ttgatacttttattgtgatgtaaaatcaacaaaagctgc
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AGATGCACAGAAAGGGGCAGAGGTTACTTCTGAAGCAACTGAGAGGGAGCTTGAGCTTGAAGCTCAACTTGTTGAGGCACGGAGCATAATCCAGGAGCAGgtgctgtacttt-tcctggttatgcaaattgctgattcaaaactggatcttggattcgtctattttcatttcaattctaattctaaatggatgaatgagttMapped 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|21256921|gb|BQ453809.1|BQ453809EST: TTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACTTGAGCAG GCATCAATAATGTCTAAACATCTTGCAAAATCTGACAGGCCAAGGTACTCA
genomic: TTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACAGGAGCAGgtaatgtttt ... tgtattacagGCATCAATAATGTCTAAACATCTTGCAAAATCTGACAGGCCAAGGTACTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGCTCAAAAAGAAGCAGAAGTTACTTCAGAGGCTACTGAGAGGGAACTTGAGCTTGAAGCTCAACTTGTCGAAGCAAGGAGCATCATACAGGAGCAGgtaatgttttttgttcatgcagttgaaatcacaagttaggtccaaggcatttagagcctgtttgatacttttattgtgatgtaaaatcaacaaaagctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG