Sequence
atgc intronic sequence ATGC exonic sequence...cttgtgtgtttttgtgaatgtgctcttgctagaattttcctttatacgttagttttcactatttcttctgacagcttgatgtggtttggtttttaactagGTGACTGGAAAGGCCCTTATGTTGGATGAAATAATCAATTATGTTCAGTCTTTACAGAATCAAGTTGAG
Basic information
species | Glycine max |
transcript | GLYMA06G17420.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17420.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os09g33580.1 (Oryza sativa), 3'ss of exon 3
-------------------cttgtgtgtttttgtgaatgtgctcttgctagaattttcctttatacgttagttt--tcactatttcttctgacagcttgatgtggtttggtttttaactagGTGACTGGAAAGGCCCTTATGTTGGATGAAATAATCAATTATGTTCAGTCTTTACAGAATCAAGTTGAG
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gttagatcactagttaactactaactaaactagtggtatttgcagtgacaatttttttttgtatatgttaatatgtttgatactatctttgaaagtgaaaaaaaatcatttatctgtgtagGTCACTGGAAAGGCTCTCATTTTGGATGAGATCATCAACTATGTGCAGTCCTTACAGAACCAAGTTGAG
upper sequence: GLYMA06G17420.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g42470.1 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------------------cttgtgtgtttttgtgaatgtgctcttgctagaattttcctttatacgttagttttcactatttc----ttctgac---agcttgatgtggtttggtttttaactagGTGACTGGAAAGGCCCTTATGTTGGATGAAATAATCAATTATGTTCAGTCTTTACAGAATCAAGTTGAG
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gtaaaaaataagttggttactatttaactattacatgctctagttcaattctttcctctcatttttatttttgagagta-attattgttgagttgtacagttgta-gtgacatcttgctaatgcatggctctaactttgataagaaacaactgtgcttttcttcagGTTACTGGAAAGGCTCTCATTTTGGATGAGATCATCAACTATGTACAGTCGTTGCAGAACCAAGTTGAGMapped 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|298198903|gb|HO042266.1|HO042266EST: TAAGTGAAAGGATGAAGGTGTTGCAACGGCTTGTGCCAGGCTGTGATAAG GTGACTGGAAAGGCCCTTATGTTGGATGAAATAATCAATTATGTTCAGTCT
genomic: TAAGTGAAAGGATGAAGGTGTTGCAACGGCTTGTGCCAGGCTGTGATAAGgtaggtaaag ... ttttaactagGTGACTGGAAAGGCCCTTATGTTGGATGAAATAATCAATTATGTTCAGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgttagttttcactatttcttctgacagcttgatgtggtttggtttttaactagGTGACTGGAAAGGCCCTTATGTTGGATGAAATAATCAATTATGTTCAGTCTTTACAGAATCAAGTTGAG
ttttt CT-rich tract
tttttaacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgtgtgtttttgtgaatgtgctcttgctagaattttcctttatacgttagttttcactatttcttctgacagcttgatgtggtttggtttttaactagGTGACTGGAAAGGCCCTTATGTTGGATGAAATAATCAATTATGTTCAGTCTTTACAGAATCAAGTTGAG
- tgtgtgt
- - - - - - - -gaatgtg
- - - - - - - - - - - ctcttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtttgg