Sequence
atgc intronic sequence ATGC exonic sequence...agatcctttgaagatgaactaggacatgaaattctttatcttgtaatattctaaattcacattatcttgatttcttagggtgcatcttatattgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGTTGTGGTGTTTCTGGTATTG
Basic information
species | Glycine max |
transcript | GLYMA11G19970.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G19970.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g57330.1 (Oryza sativa), 3'ss of exon 3
---agatcctttgaagatgaactaggacatgaaattctttatcttgtaatattctaaattcacattatcttgatttcttagggtgca-tcttatattgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGTTGTGGTGTTTCTGGTATTG
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ttttgatt-tcagtaactttacttg--tttgggactttgagtcctatactcctattactgtcagtacacttgacatttaaggttttactcccatcctgtc-cagGAAAAGAATAGCAGAAAAGGTAGATTTTCTCCATCTAAACTGAAAGGAAAAAGGGTGATTGAGCTAGGAGCTGGTTGTGGTCTAGCTGGGCTTG
upper sequence: GLYMA11G19970.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G08125.1 (Arabidopsis thaliana), 3'ss of exon 3
--agatcctttgaagatgaactaggaca--tgaaattctttatcttgtaatattctaaattcacattatcttgatttcttagggtgcatcttatattgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGTTGTGGTGTTTCTGGTATTG
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ctagacctcctgctcaaaccctagattagttacaaatagtcatttactagacttaacaagaaagccttgtctgacttcctga----cgcttaaaatatttacagGGGAAAAATAGCAGGAAGGGAAGGTTTAGTTCATCTAAACTGAAAGGGAAACGTGCTATTGAACTAGGAGCAGGTTGTGGCGTTGCAGGATTTG
upper sequence: GLYMA11G19970.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0061g00490.t01 (Vitis vinifera), 3'ss of exon 5
-----agatcctttgaagatgaactaggacatgaaattctttatcttgtaatattctaaattcacattatcttgatttcttagggtgcatcttat--attgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGTTGTGGTGTTTCTGGTATTG
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ctgcaatctgcatgggtcatgagttgtggacttacattgctttctgtgtgatactgta-------ttcttctaaatctgcaaagttgcacttgtttgaatcactcagGAGAGGAATTGCAGAAAGGGAAGGTTTAGCCCATCTAAATTGAAAGGAAAACGTGTTATTGAACTTGGAGCAGGTTGTGGAGTAGCTGGATTTG
upper sequence: GLYMA11G19970.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0017g01120.t01 (Vitis vinifera), 3'ss of exon 5
agatcctttgaagatgaactaggacatgaaattctttatcttgtaatattctaaattcacattatcttgatttcttagggtgcatcttat--attgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGTTGTGGTGTTTCTGGTATTG
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--ctgcaatctgcatgggtcatgagttgtggacctacattgctttctgtgtgataccgtattcttctaaatctgcaaagttgcacttgtttgaatcactcagGAGAGGAATTGCAGAAAGGGAAGGTTTAGCCCATCTAAATTGAAAGGAAAACGTGTTATTGAACTTGGAGCAGGTTGTGGAGTAGCTGGATTTGMapped 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|13478092|gb|BG507710.1|BG507710EST: ACTTANGGACTACAGTATGGGATGCATCACTTGTGTTTGCCAAGTTTCTT GAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAA
genomic: ACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGCCAAGTTTCTTgtaagttgtg ... attgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattctaaattcacattatcttgatttcttagggtgcatcttatattgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGTTGTGGTGTTTCTGGTATTG
ttgtttc CT-rich tract
taaattcacattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agatcctttgaagatgaactaggacatgaaattctttatcttgtaatattctaaattcacattatcttgatttcttagggtgcatcttatattgtttcagGAACGGAATTGCAGAAAGGGAAGGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGTTGTGGTGTTTCTGGTATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT