Sequence
atgc intronic sequence ATGC exonic sequenceTGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttatcctttctgcaaaaatagcatttgaaaataaaatattatttgttattagaaatcttccaagtcttataaaaaatattattcttttgata...
Basic information
species | Glycine max |
transcript | GLYMA04G12890.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os08g39070.1 (Oryza sativa), 5'ss of exon 6
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtat-----gaggttatcctttctgcaaaaa-----tagcatttgaaaa---taaaatattatttgt----tattagaaatcttccaagtcttataaa----aaatattattcttttgata----------
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TGGCTGCTCATCTGACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAATATCTTGTTTCCATGCAGAAAGgtattttttgttgctgttgagccctcaaaatatgtctgctattcgatgtgcttgaaatatagttcaaaatatgtttgccacctgttacttcaaataggtatcaactgtaaatccctttaccatcactgcag
upper sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G080652_T01 (Zea mays), 5'ss of exon 6
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttat-----------cctttctgcaaaaatagcatttgaaaataaaatatt----atttgttattagaaa--tcttccaagtcttataaaaaatattattcttttgata------------------------------------------------------------------------
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TGGCTGCTCATCTTACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAGTATCTCGTTGCCATGCAAAAAGgtccgtaaatatatgaagtgccacattgcttcatatctcgctactgagataataatctttcgtgcttgttatccaaaacatgcttccattcttctttaaacctttagaactttgatgatttcatgttaatggccctgttagaactttgacttgagaagtttaactgcaaagccttttcttcaactgcag
upper sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G028089_T01 (Zea mays), 5'ss of exon 6
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttatcctttctgcaaaaatagcatttgaa-aataaaatattatttgttattagaaatcttccaagtcttataaaaaatattattc-ttttgata--------------------------------------------------------------------------------------------------
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TGGCTGCTCATCTTACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAGTATCTTGTTGCCATGCAAAAAGgtccgtacatatatgaagtgctacatttttttctctttactgaaataatgctatattgtgctagcttttcaaacatgctttcattcatgattcatctttaaacctaaacctttagaactctaatttcccaaacttgttaatggccctgttggatttttgccttgagaaaactgcagtgcaaagccttttgttcactgcag
upper sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 6
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttatcctttctgcaaaaatagcatttgaaaataaaatattat----------------ttgttattagaaatcttccaagtcttataaaaaatattattcttttgata------------------
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TGGCTGCTCATCTTACTGGTATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTTTACCAAAATCTTGCTGCAATGCAGAAAGgtat-attctgttctttcccaagttccgattcttatcaccgtggtttcatgtttaccagtccaggattctagctgaagatagtcaaagttgtgtaagtgtaataatttatctgccaactcatttatgtgtgtag
upper sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttatcc---tttctgcaaa-aatagcatttgaaaataaaatattatttgttattagaaatcttccaagtcttataaaaaatattattcttttgata---------------------------------------------------------------------------------------
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TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgctcaagtccccactctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttga-tcttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag
upper sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 5'ss of exon 6
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttatcctttctgc---aaaaatagcatttgaaaataaaatattatttgttattagaaatcttccaagtcttataaaaaatattattcttttgata--
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TGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAGgtgtatgtcttttttgtttatttagaaatttgaatttgtt--caaagtagtggaagagaggataggattttc---tctaagaaaaaacatagaggaaagaactaaMapped 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|23727557|gb|BU761813.1|BU761813EST: TCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAG GTGATGTTCCTTGCGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGA
genomic: TCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggtt ... ttaaaagcagGTGATGTTCCTTGCGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttatcctttctgcaaaaatagcatttgaaaataaaatattatttgttattagaaatcttccaagtcttataaaaaatattattcttttgata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaata