Sequence
atgc intronic sequence ATGC exonic sequence...tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaagattttattcttcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
Basic information
species | Glycine max |
transcript | GLYMA10G02400.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 11
---tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaagattttattcttcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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acgtcatatattaaaaaacggaggtagtagttttgtagccataacatgctttcaatttattttctttataaatcat-ttgaatatttgattgacctt--tcagGGGACCCAGTTATGGTTATCGAGGCAGAGTGATGCTTGCTTTTGAAGAAAATGGGTCTTCCAAAATTGGAGTTCGATTTGACAAGCAGATCCCTGATGGT
upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 2
--------tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaagattttattcttcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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aaatcagatattctttccccatatcacattttt---tctagcaccata--ttatattagtccaatacatatatttgtttatataaattgcttgcttgatctc---cagGGGACCAAGTTATGGTTATCGAGGCAGAGTGATGCTTGCTTTTGAAGATAATGGATCCTCAAAAATTGGAGTCCGATTTGACAAGCAGATCCCTGATGGT
upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G126453_T01 (Zea mays), 3'ss of exon 6
--tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaagattttattcttcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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atgatacattctttcttctgatgacat-tacttttttctccagcaaccattttaattcaatacatgcat-tcatttttataaattgtttgattgatctttagGGGACCAAGTTATGGTTATCGAGGTAGAGTGATGCTTGCTTTTGAAGATAATGGATCCTCAAAAATTGGAGTCCGGTTTGACAAGCAGATCCCTGATGGT
upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
------tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaag--attttattcttctt-ctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
upper sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
---tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaagattttattct-tcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttt--tgttctgttaaaacagtttctcattttatgttttttattg--cagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGGMapped 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|18848608|gb|BM567759.1|BM567759EST: GTTGGTAACTTTCCTTCTGCCGTCTCATCACTGCCAAATTATCCTTCAAG GGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAA
genomic: GTTGGTAACTTTCCTTCTGCCGTCTCATCACTGCCAAATTATCCTTCAAGgtaatttttc ... tattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttttttcttattctggaaaattaagattttattcttcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
ttttattcttcttcta CT-rich tract
aaaattaagattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaagattttattcttcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - -tcctcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcttc