Sequence
atgc intronic sequence ATGC exonic sequencegtaagcgtgatcctaacttgtttcgatttctggagttaaaagctttcttaaatactgtgaatattttcttaattcttcatcataaaacatcaaaacttttacttcttattttgataaactatagaaggtaattactgatttttaagttgcttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACCAAGCTGGCCCTAATGGCAATGTTCAATCAGAGCTACTCTTCCGAAAGGA
Basic information
species | Glycine max |
transcript | GLYMA18G50760.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g32110.3 (Oryza sativa), 3'ss of exon 3
gtaagcgtgatcctaacttgtttcgatttctggagttaaaagctttcttaaatactgtgaatattttcttaattcttcatcataaaacatcaaaacttttacttcttattttgataaactatagaaggtaattactgatttttaagttgcttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACCAAGCTGGCCCTAATGGCAATGTTCAATCAGAGCTACTCTTCCGAAAGGA
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gtaagtcaatttacaaactgttctcctttat----ttaagaaaattggagtgcacttgtaatacgttcctttatctctctc--------------tctctctctctttctctgat--------gaagtttattccttctattt-------------tagATGATACTGCGATGTTCTGGGGAGTTAAGTTCTATAACGATTTGCTCATGCAAGCTGGTCCACTTGGAAATGCACAGTCAGAACTTCTTCTGCGTAAGGA
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G29810.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagcgtgatcctaacttgtttcgatttctggagttaaaagctttcttaaatactgtgaatattttcttaattcttcatcataaaacatcaaaacttttacttcttattttgataaac-tatagaaggtaattac-tgat-ttttaagttgcttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACCAAGCTGGCCCTAATGGCAATGTTCAATCAGAGCTACTCTTCCGAAAGGA
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--------------------------------------------------------------------gtaagtttct---------cattcagattctttctcttgttcttaagaaatgtttggtttctaataatataatgttttggatcatatattgaagATGACACGGCCATGCTATGGGGAATCAAGTTCTACAATGATTTTTTAAGCCAAGCTGGTCCAGTAGGCAATGTACAGTCAGAGCTTCTCTTCCAAAAGAA
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 5
gtaagcgtgatcctaacttgtttcgatttctggagttaaaagctttcttaaatactgtgaatattttcttaattcttcatcataaaacatcaaaacttttacttcttattttgataaactatagaaggtaattactgatttt-taagttgctttt----aacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACCAAGCTGGCCCTAATGGCAATGTTCAATCAGAGCTACTCTTCCGAAAGGA
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---------------------------------------------------------------atatcatcgctttgcatgacaaaatgt-gcatgtttccctttttggtttatgacatattgaaaattgaacatgggtataacaagttcttttttcccaacagATGATACTGCCATGCTATGGGGGGTTAAGTTCTACAATGATCTGCTCGTGCAAGCTGGCCCTCTTGGAAATGTACAGTCAGAGCTACTCTTTCGGAAGGA
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 5
gtaagcgtgatcctaacttgtttcgatttctggagttaaaagctttcttaaatactgtgaatattttcttaattcttcatcataaaacatcaaaacttttacttcttattttgataaactatagaaggtaattactgatttttaagttgcttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACCAAGCTGGCCCTAATGGCAATGTTCAATCAGAGCTACTCTTCCGAAAGGA
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---------------gtacgtcatatcttctcaagatttgg---ttttgcaaagttgt---tgtctgccagctttttaaataaaaaacat-gcaactgttcgtcttaatcctaacatcttgt-gaatatgaattttggttat-------------acagATGACACTGCCATGTTATGGGGAGTCAAGTTTTACAATGATTTGCTCTCTCAAGCTGGTCCTCTTGGGAATGTGCAGTCAGAGCTACTATTTCGAAAGGAMapped 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|8827739|gb|BE211469.1|BE211469EST: TCAGCTGTTCAGTTTCAACTACAAGTCATTGACTCCTTATGGTTCAATAA ATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACC
genomic: TCAGCTGTTCAGTTTCAACTACAAGTCATTGACTCCTTATGGTTCAATAAgtaagcgtga ... cttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACC
EST:
gi|6071984|gb|AW101371.1|AW101371EST: TCAGCTGTTCAGTTTCAACTACAAGTCATTGACTCCTTATGGTTCAATAA ATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACC
genomic: TCAGCTGTTCAGTTTCAACTACAAGTCATTGACTCCTTATGGTTCAATAAgtaagcgtga ... cttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACC
EST:
gi|208165412|gb|GD961580.1|GD961580EST: TCAACTGTTCAGTTTCAACTACAAGTCATTGACTCCTTATGGTTCAATAA ATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTAAACC
genomic: TCAGCTGTTCAGTTTCAACTACAAGTCATTGACTCCTTATGGTTCAATAAgtaagcgtga ... cttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttattttgataaactatagaaggtaattactgatttttaagttgcttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACCAAGCTGGCCCTAATGGCAATGTTCAATCAGAGCTACTCTTCCGAAAGGA
tactgat putative branch site (score: 2)
ttgctttt putative PPT
taattactgattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcgtgatcctaacttgtttcgatttctggagttaaaagctttcttaaatactgtgaatattttcttaattcttcatcataaaacatcaaaacttttacttcttattttgataaactatagaaggtaattactgatttttaagttgcttttaacagATGATACTGCAATGCTATGGGGAGTTAAGTTCTATAATGATTTTCTCAACCAAGCTGGCCCTAATGGCAATGTTCAATCAGAGCTACTCTTCCGAAAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT