Sequence
atgc intronic sequence ATGC exonic sequenceGTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtttcttttcatcccaattttacgaatttttccttatacaagacaaatattattggtgatcgatggaatacataagttaacaaagacccatgg...
Basic information
species | Glycine max |
transcript | GLYMA09G39500.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39500.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g57710.1 (Oryza sativa), 5'ss of exon 5
GTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtttcttttcatcc--caattttacgaatttttccttatacaagacaaatattattggtgatcgatggaatacataagttaacaaagacccatgg
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GTTTTTGTGGCTTATGGCTGTTGGTACCATTCTTTGTGCATCATACTGGTCAGCATGGAGTGCTCGAGAAGCAGTTATTGAACAAGAGAAGCTTCTAAAGgttctgaacagaagcttatttgactattgttctggattttgtttgcttgaaaagagaactaacagtcatt--tggtttatgtag------------------
upper sequence: GLYMA09G39500.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G096343_T01 (Zea mays), 5'ss of exon 5
GTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtttct--tttcatcccaattttacgaatttttccttatacaagacaaatattattggtgatcgatggaatacataagttaacaaagacccatgg
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GTTTCTGTGGCTTATGGCAGTTGGTACCATTCTTTGTGCATCATACTGGTCAGCATGGAGTGCCCGAGAAGCAGATATTGAACAAGAGAAGCTTCTGAAGgttctaaaccccaaatcttgtttgatttctattgctagttttgcgtacttgaaaaaaagggac--tgacaggttcaatactt--gttag-------------
upper sequence: GLYMA09G39500.1 (Glycine max), 5'ss of exon 5
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 5'ss of exon 5
GTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtttcttttcatccc----aattttacgaatttttccttatacaagacaaatattattggtgatcgatggaataca---taagttaacaaagacccatgg----------
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CTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctggacatccaccatgttcgaaccttttgacagccaaggaaaagtgccctcattcgtttgttatctatcttaaactgcag
upper sequence: GLYMA09G39500.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 5'ss of exon 5
GTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgtta--------ctggtttcttttcatcccaatttt-------acgaatttttccttatacaagacaaatattattggtgatcgatggaatacataagttaacaaagacccatgg---------------------
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GTTTTTGTGGCTCATGGCCGTTGGTACCATTTTATCTGCATCTTACTGGTCTGCATGGAGTGCCAGAGAAGCAGCTAATGAGCAGGACAAGCTATTAAAGgtaaacttctccttagttactgttatttccatctcttttgaggagggaactccttactcatgggttaagaatcctttctgaatgatccatttgttcttccattgaatgt--atggactgttttttttatcttgtagMapped 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|208163174|gb|GD962828.1|GD962828EST: CTGCCTGGACTGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAG GATGCTTCAGATGAATACATAAATGCAGAGAATGCTGGTTCTAGTGCATAT
genomic: CTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtt ... tatattgcagGATGCTTCAGATGAATACGTAAATGCAGAGAATGCTGGTTCTAGTGCATAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtttcttttcatcccaattttacgaatttttccttatacaagacaaatattattggtgatcgatggaatacataagttaacaaagacccatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC