Sequence
atgc intronic sequence ATGC exonic sequencegttagtttcccgctgctacatattacaatgatcatattacattcataatgttattaaagtctatttgaatttttatgtcatcagGACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACGGATGAAATCAGCTACCTTAAGGTTGGAATTCCCC
Basic information
species | Glycine max |
transcript | GLYMA04G04060.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os11g40080.1 (Oryza sativa), 3'ss of exon 7
---------------------gttagtttcccgctgctacatattacaat-----gatcat-attacattcataatgttattaaagtcta--tttgaatt-tttatgtcat-cagGACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACGGATGAAATCAGCTACCTTAAGGTTGGAATTCCCC
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gtcagtactcagcaacacaaagataaatatatgaacatacattgaataattgcttgctcttcattgcgctcatgaaataattcgtaccaagtcttgattcacctgtttcacacagGCTATCAAAGCACTATTTCCTCCTGACTCAAATCCATTCTATGCTGGATTTGGAAATAGAGATACAGATGAGCTTAGTTACCTCAAGGTTGGGATTCCTA
upper sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 13
lower sequence: AT5G42870.2 (Arabidopsis thaliana), 3'ss of exon 8
gttagtttcccgctgctacatattacaatgatcatattacattcataatgttattaaagtctatttgaatttttatgtcat---cagGACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACGGATGAAATCAGCTACCTTAAGGTTGGAATTCCCC
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gttagttttatgcgggt-ttttttatgtctgttgaact-ctcatgtcctctgaactacgtttaactcggtttttccaaaatatacagGAGATACGGGGCTTGTTTCCTCCCGAACACAACCCATTCTATGCTGGTTTTGGAAACAGAGACACAGATGAGATAAGCTACCTTAAAGTCGGAATCCCCC
upper sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 10
-------------gttagtttcccgctgctacatattacaatgatcatattacattc---ataatgttattaaagtctatttgaatttttatgtcatcagGACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACGGATGAAATCAGCTACCTTAAGGTTGGAATTCCCC
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gtgtatggtctttgtgcatgcccggatcatttgttggatgagtggaaggttaaggatgaaaaaaggtagctaataatgcttttagttccccaattttcagGATATCAAGGCATTATTTCCTTCTGATTGCAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAMapped 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|9258782|gb|BE346929.1|BE346929EST: GAATTCAAAATAGCATGCTTAGAG GACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTT
genomic: GAATTCAAAATAGCATGCTTAGAGgttagtttcc ... atgtcatcagGACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcatattacattcataatgttattaaagtctatttgaatttttatgtcatcagGACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACGGATGAAATCAGCTACCTTAAGGTTGGAATTCCCC
tttttat CT-rich tract
attcataatgttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtttcccgctgctacatattacaatgatcatattacattcataatgttattaaagtctatttgaatttttatgtcatcagGACATCAAGGCACTTTTTCCTTCTGATAGCAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACGGATGAAATCAGCTACCTTAAGGTTGGAATTCCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT