Sequence
atgc intronic sequence ATGC exonic sequence...gaattttgtaaaatcttgcaattctatttatgatttgtaccccctttttgatcggaggtaaatattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
Basic information
species | Glycine max |
transcript | GLYMA18G07280.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g43350.1 (Oryza sativa), 3'ss of exon 8
gaattttgtaaaatcttgcaattctatttatgatttgtac-cccctttttgatcgg-aggtaa-atattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
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--------------------------gtgagaattcttctgctcctttttaataagcatgcagcattttcagttgatttgacattctttttacactat-acagGGCAGACCTTGCAAATTTAGTAAATGAAGCTGCTTTGTTGGCTGGGAGATCAAATAAAGAAATAGTGGAAAAAATTGACTTCATCTGTGCAGTGGAGCGC
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G163193_T02 (Zea mays), 3'ss of exon 8
gaattttgtaaaatcttgcaattctatttatgatttgtaccccctttttgatcggaggtaaatattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
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-------gtaaaactt----attctaccaatttcttga-------tcttgaccctgtagggatttcaaattgacgtgttaaataattttatgctatacagAGCAGACCTTGCAAACTTGGTAAATGAAGCTGCTTTGTTGGCTGGGCGATTAAATAAAGAAATTGTGGAAAAGATTGACTTCATCCATGCGGTTGAGCGA
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 8
gaattttgtaaaatcttgcaattctatttatg-atttgtaccc---cctttttgatcggaggtaaatattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
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---cccattcaggttctatatatgtatatgtgtgtgtgtgtgtgtgttttcctaatttctagctaacattgataatt-ttttgttgattttggatgctgtgcagGGCAGACCTAGCAAATTTAGTGAATGAAGCTGCTTTGTTAGCTGGAAGACAAAATAAAGTTGTCGTGGAGAAAATTGATTTTGTTCATGCAGTAGAGCGG
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ33021 (Selaginella moellendorffii), 3'ss of exon 8
gaattttgtaaaatcttgcaattctatttatgatttgtaccccctttttgatcggaggtaaatattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
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---------------------------------------------gtaagagtgtggattgcaaatattttggcttacgaccctgtatacg------cagAGCGGATCTTGCAAACCTTGTAAACGAGGCTGCTCTACTAGCTGGTAGAGAAAATAAGCTTGAAGTCGGGAAAGTGGAGTTTTCGCGTGCTGTTGAGCGT
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ30338 (Selaginella moellendorffii), 3'ss of exon 8
gaattttgtaaaatcttgcaattctatttatgatttgtaccccctttttgatcggaggtaaatattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
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---------------------------------------------gtaagagtgtagattgcaaatattttggcttacgaccctgtatacg------cagAGCGGATCTTGCAAACCTTGTAAACGAGGCTGCTCTACTAGCTGGTAGAGAAAATAAGCTTGAAGTCGGGAAAGTGGAGTTTTCGCGTGCTGTTGAGCGTMapped 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|192305728|gb|FG995698.1|FG995698EST: AAGGATGTTGACCTCAGTGGCATTGCTTGTATGACCACTGGTTTTACTGG AGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACA
genomic: AAGGATGTTGACCTCAGTGGCATTGCTTGTATGACCACTGGTTTTACTGGgtaagtatgc ... atcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgatcggaggtaaatattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
ttttgac putative branch site (score: 3)
taaatattgattttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaattttgtaaaatcttgcaattctatttatgatttgtaccccctttttgatcggaggtaaatattgattttgactaccctgctatttacatcattacagAGCAGATCTTGCAAACCTAGTAAATGAGGCTGCTTTACTGGCTGGGAGACAAAATAAAGTTGTGGTGGAGAAACTTGATTTCATCCAAGCTGTAGAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - cttgcaa
- - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctgct