Sequence
atgc intronic sequence ATGC exonic sequence...tattggaaatcatattatttaatcaatacagatctttcaattatcggaatccttatgttgcagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAAGAGCATTCTATGATTTTTGCTATGCCAAATAA
Basic information
species | Glycine max |
transcript | GLYMA18G00720.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 5
-----tattggaaatcatattatttaatcaatacagatctttcaattatcggaatccttatgttgcagttatct-ttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAAGAGCATTCTATGATTTTTGCTATGCCAAATAA
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ttttccttccatgctcacactgttttgtcgtccacaacagtacatatgtgacattgttcattttgtgcctgtatgtaaccatatacctttttggttta------agTTGGAGCTTATCCCAACATACAGAACTTGTTTGGCGAGCTTGGTATTAATGATCGGTTGCAATGGAAGGAACACTCCATGATATTTGCCATGCCAAACAA
upper sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------------------tattggaaatcatatta-tttaatcaa---tacagatct----ttcaattat-cggaatccttatgttgcagttat--ctttgctttaca---actttttccccctccccac----agTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAAGAGCATTCTATGATTTTTGCTATGCCAAATAA
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gtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaagTCGGTGCTTATCCGAATGTGCAGAATTTATTTGGAGAACTTGGGATCAATGATCGGTTGCAGTGGAAGGAACACTCCATGATTTTTGCTATGCCAAGTAA
upper sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
--------tattggaaatcatattatttaatcaatacagatctttcaattatcggaatccttatgttgcagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAAGAGCATTCTATGATTTTTGCTATGCCAAATAA
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atccaccctatcctga--tacatcatcatgtctgtaagaattttttaccta-----attcttaatctg-attcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAAMapped 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|209699095|gb|BW664324.1|BW664324EST: ATGGAAAGACAAGGATGGAGACTGGTACGAGACAGGCCTACACATCTTTT TTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATG
genomic: ATGGAAAGACAAGGATGGAGACTGGTACGAGACAGGCCTACACATCTTTTgtaagttcat ... ctccccacagTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaatccttatgttgcagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAAGAGCATTCTATGATTTTTGCTATGCCAAATAA
tctttgctttacaact CT-rich tract
ttatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattggaaatcatattatttaatcaatacagatctttcaattatcggaatccttatgttgcagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAAGAGCATTCTATGATTTTTGCTATGCCAAATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - -caataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttta