Sequence
atgc intronic sequence ATGC exonic sequence...tattggacatcatattatttaatcaatacagatcttttaattattagaatccttattttgtagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
Basic information
species | Glycine max |
transcript | GLYMA11G36810.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 5
----tattggaca-tcatattatttaatcaatacagatcttttaattattagaatccttattttgtagttatct-ttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
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ttttccttccatgctcacactgttttgtcgtccacaacagtacatatgtgacattgttcattttgtgcctgtatgtaaccatatacctttttggttta------agTTGGAGCTTATCCCAACATACAGAACTTGTTTGGCGAGCTTGGTATTAATGATCGGTTGCAATGGAAGGAACACTCCATGATATTTGCCATGCCAAACAA
upper sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------------------tattggacatcatatta-tttaatcaa---tacagatct----tttaattat-tagaatccttattttgtagttat--ctttgctttaca---actttttccccctccccac----agTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
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gtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaagTCGGTGCTTATCCGAATGTGCAGAATTTATTTGGAGAACTTGGGATCAATGATCGGTTGCAGTGGAAGGAACACTCCATGATTTTTGCTATGCCAAGTAA
upper sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
tattggacatcatattatttaatcaatacagatcttttaattattag---aatccttattttgtagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
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--atccaccctatcctgatacatcatcatgtctgtaagaattttttacctaattcttaatctg-attcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
upper sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ10018 (Selaginella moellendorffii), 3'ss of exon 4
tattggacatcatattatttaatcaatacagatcttttaattattagaatccttattttgtagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
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-------------------------------------------gtgagtttctgatacttccg--attttaagtttctaatccctgcttacgtttc-cagTCGGAGCATATCCCAACGTGCAAAACTTGTTTGGAGAACTTGGCATCAATGATAGGCTGCAGTGGAAGGAGCACAGCATGATCTTTGCAAGGCCCGATAAMapped 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|209709796|gb|BW657247.1|BW657247EST: ATGGAAAGACAAGGATGGAGACTGGTATGAGACAGGTCTACACATCTTCT TTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATG
genomic: ATGGAAAGACAAGGATGGAGACTGGTATGAGACAGGTCTACACATCTTCTgtaagttcat ... ctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATG
EST:
gi|15589813|gb|BI674429.1|BI674429EST: ATGGAAAGACAAGGATGGAGACTGGTATGAGACAGGTCTACACATCTTCT TTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATG
genomic: ATGGAAAGACAAGGATGGAGACTGGTATGAGACAGGTCTACACATCTTCTgtaagttcat ... ctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaatccttattttgtagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
tctttgctttacaact CT-rich tract
ttattttgtagttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattggacatcatattatttaatcaatacagatcttttaattattagaatccttattttgtagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - -caataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttta