Sequence
atgc intronic sequence ATGC exonic sequenceggtatgtagaatgtcaattaattgcttattatagttctccttctcttacttgtaagcacaaaatcgctttttttaaaaaaaaatattttactagcacgttatggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA
Basic information
species | Glycine max |
transcript | GLYMA17G36310.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 11
ggtatgtagaatgtcaattaattgcttattatagttctccttctcttacttgtaagcacaaaatcgctttttttaaaaaaaaatattttactagcacgttatggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA-
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-------------------------------------------gtaagtttcctatcagtaaattgccttgttttcagc------ttttcatagcattcggatattaaatggtgttttctgctgtt-tgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 10
ggtatgtagaatgtcaattaattgcttattatagttctccttctcttacttgtaagcacaaaatcgctttttttaaaaaaaaatattttactagcacgttatggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA-
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------------------------------gtaaactttttcttgtttcttg-aacctcttatccacggttactgattcgccttcttttctttgcattctgatatt-ttatgttgtttgctgttatttgcagATTGCTCTGGGAAATATTTTAAAGTTCAGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGCATCATATACTTTCTCTTGGTCTTTTCCTTGTTCCCTC
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 11
ggtatgtagaatgtcaattaattgcttattatagttctccttctcttacttgtaagcacaaaatcgctttttttaaaaaaaaatattttactagcacgttatggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA-
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------------gtaaatctgaaaat--ctacagttc-cattggcttgtcaataccaaaaatttcattttatattcctttttttttccttttaatttctcaataatatggtgtattggtca-tttgatgcagATTGCATTGGGAAATATTTTGAAGTTCCGAAAGAAGAATTGGCAGTTTGATTTCATTGGTGGCATTATATATTTTGTATTGGTTTTTTCTATGTTTCCAC
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S147_29V6.1 (Physcomitrella patens), 3'ss of exon 10
ggtatgtagaatgtcaattaattgcttattatagttctccttctcttacttgtaagcacaaaatcgctttttttaaaaaaaaatattttactagcacgttat------ggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA-
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--------------------------------------tatattattttttaaaaaaaagaagctaagttttgaaagataagtaatctgatttggaggtgtttgaactgatttgaactgattgaaatgttttatatagATAGCATTGGGCAACATTTTAAAATTCAGAAGGAAGAATTGGCAATTTGATGTTATTGGTGGTATTGTGTACTTTGTGTTAGTGTTTTCAATGTTTCCACMapped 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|11273794|gb|BF324189.1|BF324189EST: GTTTCCTATGAATGCAAAGCTGCATATCCTTCCTTTGAGGATTCGAGCAG GATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGA
genomic: GTTTCCTATGAATGCAAAGCTGCATATCCTTCCTTTGAGGATTCGAGCAGggtatgtaga ... atttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaaatattttactagcacgttatggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA
ttgtaac putative branch site (score: 2)
ttatggttgtaacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtatgtagaatgtcaattaattgcttattatagttctccttctcttacttgtaagcacaaaatcgctttttttaaaaaaaaatattttactagcacgttatggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG