Sequence
atgc intronic sequence ATGC exonic sequence...ctgtacatgcatttgtaataccagatatagaagactacttatcaaatttgaccatttgcattattttatttcctaatctcttgcattattgatgccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCATTGACGAAAGAGATCAAGGTATTCAAGAAATTCAGTCGCAAATTGGTGAA
Basic information
species | Glycine max |
transcript | GLYMA09G33950.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G33950.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g47440.2 (Oryza sativa), 3'ss of exon 4
ctgtacatgcatttgtaataccagatatagaagactacttatcaaatttgacc-atttgcattattttat-ttcctaatctcttgcattattgatgccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCATTGACGAAAGAGATCAAGGTATTCAAGAAATTCAGTCGCAAATTGGTGAA
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-cttattttgattgatattcatggtgataaaatacgacatgcaagatttggtagaatcacttttccttacatctctgctaagttatcatgttttt-cttcagGCAAGAGGTGCTGCAATTGGATAATGAAATTGTTTTCAATGAAGCTATCATTGAGGAAAGGGAGCAAGCTATTCAAGATATTCAACAACAGATTGGTGAA
upper sequence: GLYMA09G33950.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
------------ctgtacatgcatttgta-ataccagatatagaagactacttatcaaatttgaccatttgcattattttatttcctaatctcttgcattattgat-gccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCATTGACGAAAGAGATCAAGGTATTCAAGAAATTCAGTCGCAAATTGGTGAA
| || || || | | | |||| | | |||||| | ||| | | | | || | ||| | ||||| | ||||| ||| | |||| ||||| || |||||||| ||||| |||||| | ||||| |||||||| ||||| || |||||||| || ||||||||||||
gtaggtgatatcgaaaaaatattcttttacacatctcttatatgatgcaacttattttctcct-ttgcttgattgttgatgcaacttattttctcctttgcttgattgttgtagACAAGAACTTGTATTGTTAGACAACGAGATTGCATTCAACGAGGCTGTGATTGAAGAAAGAGAGCAAGGAATACAAGAAATCCATCAGCAAATTGGTGAG
upper sequence: GLYMA09G33950.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G17730.1 (Arabidopsis thaliana), 3'ss of exon 4
ctgtacatgcatttgtaataccagatatagaagactacttatcaaatttgaccatttgcattattttatttcctaatctcttgcattattgatgccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCATTGACGAAAGAGATCAAGGTATTCAAGAAATTCAGTCGCAAATTGGTGAA
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--------------gttagtttatacagacaatggtgtccatc---tttgttcggttga--tgagttatctattgattggtttgttgttttttgttgcagACAAGAACTTGTACTGTTGGACAATGAGATTGCGTTCAATGAGGCTGTTATTGAGGAAAGAGAGCAAGGGATACAAGAAATTCAGCAGCAAATTGGCGAG
upper sequence: GLYMA09G33950.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 4
ctgtacatgcatttgtaataccagatatagaagactacttatcaaatttgaccatttgcattat--tttatttcctaatctcttgcattattgatgccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCATTGACGAAAGAGATCAAGGTATTCAAGAAATTCAGTCGCAAATTGGTGAA
||| || ||| |||| | ||| || || | || | ||| | | | ||||| || || || ||| ||| ||||||||| || || || || || |||||||||| ||||||||||||||||||||| ||||| || || || || |||||||| ||| |||||||| ||
-aaactgggcacatgccctacattatatc-atttctaggcattaagaataggttcttctaatatgctctctcccctaaactattagatgatttgtgctgcagACAGGAGGTCTTGTTGTTGGACAATGAGATTGTCTTCAATGAGGCTATCATTGAAGAAAGGGAGCAGGGAATACAAGAAATCCAGCACCAAATTGGCGAGMapped 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|254315437|gb|GR825246.1|GR825246EST: AGTTCTGATAAGACTCCAGAACAGCGTGCTCTTCTTGTTGAATCCAGAAG ACAGGAAGTATTAT
genomic: AGTTCTGATAAGACTCCAGAACAGCGTGCCCTTCTTGTTGAATCCAGAAGgtgatttctt ... gatgccacagACAGGAAGTATTAT
EST:
gi|254315438|gb|GR825247.1|GR825247EST: AGTTCTGATAAGACTCCAGAACAGCGTGCCCTTCTTGTTGAATCCAGAAG ACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCAT
genomic: AGTTCTGATAAGACTCCAGAACAGCGTGCCCTTCTTGTTGAATCCAGAAGgtgatttctt ... gatgccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgaccatttgcattattttatttcctaatctcttgcattattgatgccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCATTGACGAAAGAGATCAAGGTATTCAAGAAATTCAGTCGCAAATTGGTGAA
atttgcattattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtacatgcatttgtaataccagatatagaagactacttatcaaatttgaccatttgcattattttatttcctaatctcttgcattattgatgccacagACAGGAAGTATTATTCTTAGATAATGAGATTGCCTTCAATGAGGCTATCATTGACGAAAGAGATCAAGGTATTCAAGAAATTCAGTCGCAAATTGGTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - catttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcttgc