Sequence
atgc intronic sequence ATGC exonic sequencegtcagtctcattctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtgtctgacagaaatttggagttataaggttttatggcgtttgtttttatatattttaagtaattcttgtttgcttaatatcttaaactggaaatgagatgaaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCGTTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
Basic information
species | Glycine max |
transcript | GLYMA05G35890.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35890.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G29130.1 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtctcattctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtgtctgacagaaatttggagttataaggttttatggcgtttgtttttatatattttaagtaattcttgtttgcttaatatcttaaactggaaatgagatgaaac-ttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCGTTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
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-----------------------------------------------------------------------------------------------------------------gtgagttctctttcgccttatgc------tctctagtgaatcccttttgtcatgtgtttgttgatttgtttttgacgttttacagGTTAATGATACCGTTGGAACACTAGCCGGTGGTAGATACTATAACCCGGATGTTGTTGCTGCTGTTATTTTAGGCACTGGGACAAACGCAGCCTATGTTG
upper sequence: GLYMA05G35890.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g03070.t01 (Vitis vinifera), 3'ss of exon 4
gtcagtctcattctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtg-tctgacaga-aatttggagttataaggttttatggcgtttgtttttatatattttaagtaattcttgtttgcttaatatcttaaactggaaatgagatgaaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCGTTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
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------------------------------------------------gtaagtcaacttgatttctctttaagagagctctcctagagaattctgttatttcaaatttgagtctggtagccttcct---ttctatctaatc--tgtcaa--gaagattttttatttagaattc--ttcaatttgctctgctgatacagGTCAATGATACAATTGGAACACTAGCAGGAGGTAGATATTATGATCAGGATGTCGTTGCTGCAGTGATCTTGGGTACTGGAACAAATGCAGCCTATGTAGMapped 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|9986079|gb|BE660187.1|BE660187EST: TAACCAAGTCCATGGAAAAAATTGGCCTGGATATCCGCGTTGCTGCTCTA GTTTAATGATACCATTGGAACATTA
genomic: TAACCAAGTCCATGGAAAAAATTGGCCTGGATATGCGCGTTGCTGCTCTAgtcagtctca ... tttgatgtagGTT-AATGATACCATTGGAACATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttgcttaatatcttaaactggaaatgagatgaaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCGTTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
ttaatatcttaaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtctcattctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtgtctgacagaaatttggagttataaggttttatggcgtttgtttttatatattttaagtaattcttgtttgcttaatatcttaaactggaaatgagatgaaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCGTTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT