Sequence
atgc intronic sequence ATGC exonic sequence...aaatcagaaaccaaaaatccccatgatcaagactactttatttatatgtatttgaatgccttataatgcatctagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCGCTTGTCAGTGTCACAACCTCTTTTGT
Basic information
species | Glycine max |
transcript | GLYMA15G03930.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G03930.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g13940.1 (Oryza sativa), 3'ss of exon 2
-aaatcagaaaccaaaaatccccatgatcaagactactttatttatatgtatttgaatgccttataatgcatctagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCGCTTGTCAGTGTCACAACCTCTTTTGT
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ttcttactgtattgtaatagaaaaaaagggacacattctgattttcaagtctttgacttattttgtctcaagttaat-ttgattccttttgttcaaaacagGCCCAGTTGAACTTGCAGCTGTTGGTGTATCTATTGCCGTGTTTAATCAAGTATCAAGGATTGCAATATTTCCCCTTGTCAGTGTCACGACATCATTTGT
upper sequence: GLYMA15G03930.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G51340.1 (Arabidopsis thaliana), 3'ss of exon 2
---aaatcagaaaccaaaaatccccatgatcaagactactttatttatatgtatttgaatgccttataatgcatctagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCGCTTGTCAGTGTCACAACCTCTTTTGT
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gtaacaacaagaacaacaactcttttcattt--gtttattgttattttataaatgaaaattattggtgtaattttcggttcttgttgtggtgatgactgatagGTCCTGTAGAGCTTGCTGCAGTTGGAGTTTCTATTGCTTTATTCAACCAAGTTTCAAGAATTGCTATTTTCCCACTTGTTAGCATCACAACTTCCTTTGT
upper sequence: GLYMA15G03930.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
aaatcagaaaccaaaaatccccatgatcaagactactttatttatatgta-tttgaatgccttata--atgcatctagtgttaaatattatt----ggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCGCTTGTCAGTGTCACAACCTCTTTTGT
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-----gatattctctgatg--ggttttggagactaactcattgttgtgttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGTMapped 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|18848596|gb|BM567753.1|BM567753EST: AGCTGATCCTATTGCTTCACTGGTTGACACAGCATTTATTGGCCAAATAG GTCCAGTAGAGCTTGCT
genomic: AGCTGATCCTATTGCTTCACTGGTTGACACAGCATTTATTGGCCAAATAGgtatgttctg ... gtccatgcagGTCCAGTAGAGCTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtatttgaatgccttataatgcatctagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCGCTTGTCAGTGTCACAACCTCTTTTGT
tagtgttaaatattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatcagaaaccaaaaatccccatgatcaagactactttatttatatgtatttgaatgccttataatgcatctagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCGCTTGTCAGTGTCACAACCTCTTTTGT
- - - - -accaaaa
- - - - - - - - -tccccat
- - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcat