Sequence
atgc intronic sequence ATGC exonic sequencetatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
Basic information
species | Glycine max |
transcript | GLYMA18G04910.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g66520.1 (Oryza sativa), 3'ss of exon 7
------------------------------------------------tatgctttaacatgccagcataaatgattaaa-ggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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gtattgcttcttgtaccttttataagttcacatagaattcactctttggttgcctgcaaacagtcaaacaggtgtcaaggtagaacaatggttgtagttttctagattaaacttctgaataatgtcaccatattttttctttgtgtgtattg-atgttttgcagATTGATGATGATGAGAAAGTTACAATGATTGACTTCCCGCAGATGGTATCTGTTAAACATCGGAATGCCCAGAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G472991_T01 (Zea mays), 3'ss of exon 9
tatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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-----cttaattttgtgatgtag-----taatacaattcagctacataggtcatagggtaatgttttatgtcagtgtataatta-aatttat----tgatgccaatgtcatgcagATTGATGATGATGAAAAAATTACGGTTATTGATTTTCCACAGATGGTATCTGTTTCTCATCGTAATGCCCAAAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G359542_T01 (Zea mays), 3'ss of exon 2
tatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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-------taatatgttcttccgtagcaacgcacaagcatttacctatatt--gtaatatttttcat-atgtctgtgtataatcaaact-----ctttgatgccaatgtcatgcagATTGACGATGATGAAAAAATTACAGTGATTGACTTTCCGCAGATGGTGTCTGTTTCTCACCGTAATGCCCAAAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G703889_T01 (Zea mays), 3'ss of exon 2
tatgctttaacatgccagcataaatgattaaagga-attctaatttttatttcatgaaatcagttattgtgttggct-tttgcttctagttta-cactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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------------------cattagtggtaaaatcacatgcacgaacatgtcttgcaatgttatatgttgcttgtactctctgtgtataatcaaactctttgatgccaatgtcatgcagATTGACGATGATGAAAAAATTACAGTGATTGACTTTCCGCAGATGGTGTCTGTTTCTCACCGTAATGCCCAAAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G038309_T01 (Zea mays), 3'ss of exon 8
tatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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-------gcacttaattttgtgatgtagtaaaacaattcaactacatatt--gtaatatttttcat-atgtctgtgtataatcaaact-----ctttgatgccaatgtcatgcagATTGACGATGATGAAAAAATTACAGTGATTGACTTTCCGCAGATGGTGTCTGTTTCTCACCGTAATGCCCAAAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G472991_T04 (Zea mays), 3'ss of exon 9
tatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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----------------------------------------------------------------------------------------------------------------------------------aAAATTACGGTTATTGATTTTCCACAGATGGTATCTGTTTCTCATCGTAATGCCCAAAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G51270.2 (Arabidopsis thaliana), 3'ss of exon 8
------------------------------------------------------------------------tatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacac--------tctgaattc-tattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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gtgagatacttagatctatctagttgaattataccttctatttgtaagttactttgctgaaaatatcatgcatttatttgaagctgccttctcatataagttaattaatactt-ctgtaagcatgctagttttgtc-ctctgcctacttacaattttcattgacacatcctgtttatgtatgcatgtatgttatagATTGATGATGAAGAGAAAATAACGATGATTGATTTTCCACAAATGGTATCTGTTTCACACCGAAATGCACAAAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 7
tatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtg--ttggcttttgcttc--tagtttacactctgaatt-ctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
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-------------------tttgacacttaaaa-agttcttagcgttacttcactggtttattttatttaattcaactaatgaatgaataaatttgattttgaatttctttttactgcagATAGATGATGATGAGAAGGTAACCATGATTGATTTCCCTCAAATGGTATCTGTGTCTCATCGTAATGCACAGAT-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|120532159|gb|EH260292.1|EH260292EST: GGCAGAGCATGGTCTCATTCATTGTGATTTCAATGAATTTAACATCATGA TTAATGATGATGNNNNNNNTTACAATGATTGATTTTCCACAAATGGTATCT
genomic: GGCAGAGCATGGTCTCATTCATTGTGATTTCAATGAATTTAACATCATGGtatgctttaa ... tcattgtagaTTAATGATGATG-AAAAAATTACAATGATTGATTTTCCACAAATGGTATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
ttctattc CT-rich tract
aattctatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgctttaacatgccagcataaatgattaaaggaattctaatttttatttcatgaaatcagttattgtgttggcttttgcttctagtttacactctgaattctattcattgtagaTTAATGATGATGAAAAAATTACAATGATTGATTTTCCACAAATGGTATCTGTGTCACACCGTAATGCGCAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG