Sequence
atgc intronic sequence ATGC exonic sequenceGTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaagtcttgtcctgcaaatcctactcacttcaaattctccttaacacacacacagagacttaattttttttcaacccatttcatgcaattttcatggagtttgtgtttacag
Basic information
species | Glycine max |
transcript | GLYMA08G18810.3 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G18810.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g14760.2 (Oryza sativa), 5'ss of exon 4
GTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaagtcttgtcctgcaaatcctactcacttcaaattctccttaacacacacacagagacttaattttttttcaacccatttcatgcaattttcatggagtttgtgtttacag
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GTGGTAGATTGCCGTATCTGTGGTGATCCACACTCAGTCTTGCGTTTTGCTTTCATTGAATTTGCTGATGATGgtaacacct---tcacaactattgtttattttgtgtatagataaaca-gcaatcataaagttatcctttcttgtgtgcag---------------------------------
upper sequence: GLYMA08G18810.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G069816_T01 (Zea mays), 5'ss of exon 4
GTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaa---gtcttgtcctg--caaatcctactcacttcaa--attctccttaacacacacacagagacttaattttttttcaacccatttcatgcaattttcatggagtttgtgtttacag
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GTTGTTGATTGCAGAATTTGTGGTGATCCCCACTCAGTTCTTAGGTTTGCATTTATTGAGTTCTCTGATGAAGgtattacatattgacctactcagatgcctttttctgtaatcaatcttcttttgatgaattttgggttccattttctctgtag--------------------------------------
upper sequence: GLYMA08G18810.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G051043_T01 (Zea mays), 5'ss of exon 4
GTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaagtcttgtcctgcaaatcctactcacttcaaattctccttaacacacacacagagacttaattttttttcaacccatttcatgcaattttcatggagtttgtgtttacag
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GTTGTTGATTGCAGAATTTGTGGTGATCCCCACTCAGTTCTTAGGTTTGCATTCATTGAGTTCTCTGATGAAGgtattacatatt------gacctact-actcagattccttttttatgtaatca----aatcttcttttgatgaatgttgtgttctgttttttttctgcag-------------
upper sequence: GLYMA08G18810.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G814159_T01 (Zea mays), 5'ss of exon 4
GTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGA--GT-
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GTGGTAGATTGCCGTATCTGTGGTGATCCTAACTCAGTGCTTCGTTTTGCTTTTATCGAGTTTGCTGATGACGgtagtagcttttgacatgacaattgt---catttgatagtcctatgttggtgta---agaaac---attctttaacaaagctgtttttctgcag------------------------
upper sequence: GLYMA08G18810.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G14450.1 (Arabidopsis thaliana), 5'ss of exon 4
GTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaagtcttgtcctgcaaatcctactcacttcaaattctccttaacacacacacagagacttaattttttttcaacccatttcatgcaatt--ttcatg----gagtttgtgtttacag
|| |||| || |||||||||| ||||||||||| ||||| || ||||| |||||||||||||| ||||| |||||| | | |||| || |||| || |||||| | | | | | |||||| || || || | ||| |||| ||||||| | |||||
GTTGTTGACTGTAGAATTTGTGGCGATCCACATTCGGTTCTTCGATTTGCGTTTGTTGAGTTTGCTGATGACCgtaagtttggctgctggaatc--------tttaaatgct--ttaacaaaaatgtgca--tgtcacttttttaacccctatagtatactattcattcacatagtaagtttgtttctacag
upper sequence: GLYMA08G18810.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv19s0176g00140.t01 (Vitis vinifera), 5'ss of exon 4
GTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaagtcttgtcctgcaaatcctactcacttcaaattctccttaacacacacacagagacttaattttttttcaacccatttcatgcaattttcatggagtttgtgtttacag
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GTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGCgtaagtttttttattt---ttttgggc-cataacatttttctcattggtgttgttgaaagt--gtgtctatgtgatt--tttcatatcatactcacttggtatatgtcaacagMapped 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|19934604|gb|BQ079634.1|BQ079634EST: TGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGT ATGGTGCAAGGACTGCTCTAAATCTTGGGGGTACCGTGCTTGGATACTATC
genomic: TGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaagtcttg ... gtgtttacagATGGTGCAAGGACTGCTCTAAATCTTGGGGGTACCGTGCTTGGATACTATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGTgtaagtcttgtcctgcaaatcctactcacttcaaattctccttaacacacacacagagacttaattttttttcaacccatttcatgcaattttcatggagtttgtgtttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG