Sequence
atgc intronic sequence ATGC exonic sequenceAAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGCGTAACTTTGCATAAGTGTGGAAGATGGGAGGCTCGAATGGGCCAATTTTTGGGCAAAAAgtaagacctaatctatcttctattatttatctattttatgtatcatgtcattcttgtgtgtgtttgttcatgccatgacgaaattaaattaatattttgatttggtttgattcactag
Basic information
species | Glycine max |
transcript | GLYMA01G39520.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G39520.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os04g55560.2 (Oryza sativa), 5'ss of exon 5
AAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGCGTAACTTTGCATAAGTGTGGAAGATGGGAGGCTCGAATGGGCCAATTTTTGGGCAAAAAgtaagacctaatctatcttctattatttatctattttatgtatcatgtcattcttgtgtgtgtttgttcatgccatgacgaaattaaattaatattttgatttggtttgattcactag
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AGAGCACGGGGTTCCCCCGGGGAAGCTCCAAGTACAGGGGCGTGACGCTCCACAAGTGCGGGAGATGGGAGGCTCGGATGGGCCAATTCCTCGGCAAGAAgtatgtcctaatcgatcaccgtttcttcctctttcgttcg-atcgt-tcgttcttgggcaatctcccgtaaatcatcttg----tgggtttttggtgcactgcag-------------
upper sequence: GLYMA01G39520.2 (Glycine max), 5'ss of exon 5
lower sequence: AT5G67180.1 (Arabidopsis thaliana), 5'ss of exon 5
AAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGCGTAACTTTGCATAAGTGTGGAAGATGGGAGGCTCGAATGGGCCAATTTTTGGGCAAAAAgtaagacctaatctatcttctattatttatctattttatgtatcatgtcattcttgtgtgtgtttgttcatgccatgacgaaattaaattaatattttgatttggtttgattcactag
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AAAGCACTGGGTTTCCAAGAGGCAGTTCTAAATACAGAGGTGTTACTTTGCACAAATGTGGAAGATGGGAGTCACGTTTGGGTCAATTCCTCAACAAAAAgta----ttaat---ttcttcatagtt--tttggtgcaaatatta----aatttccagtctgtttcttattaatttgaagtgtcctgtttgctttttttgtttg--ctatcttttcag
upper sequence: GLYMA01G39520.2 (Glycine max), 5'ss of exon 5
lower sequence: AT4G36920.2 (Arabidopsis thaliana), 5'ss of exon 6
AAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGCGTAACTTTGCATAAGTGTGGAAGATGGGAGGCTCGAATGGGCCAATTTTTGGGCAAAAAgtaagacctaatctatcttctatt-atttatctattttatgtatcatgtcattcttgtgtgtgtttgttcatgccatgacgaaattaaattaatattttgatttggtttgattcactag
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AAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATAAGTGTGGTCGTTGGGAAGCTCGAATGGGTCAATTCTTAGGCAAAAAgtataatttctctcattttatattcactcgaaaacttcat-ttttagtttgttattttaactttgagtttttgtt-tcttgaatcttataaaatag-----------------------
upper sequence: GLYMA01G39520.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0031g00220.t01 (Vitis vinifera), 5'ss of exon 5
AAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGCGTAACTTTGCATAAGTGTGGAAGATGGGAGGCTCGAATGGGCCAATTTTTGGGCAAAAAgtaagacctaatctatcttctattatttatctattttatgtatcatgtcattcttgtgtgtgtttgttcatgccatgacgaaattaaattaatattttgatttggtttgattcactag
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AAAGTACTGGTTTTCCGAGAGGAAGCTCCAAGTATAGAGGTGTAACCTTACACAAGTGCGGAAGATGGGAAGCTAGAATGGGCCAATTTTTAGGCAAAAAgta--atctagttcatcttgaattcttgat------tatgtggggtttattgtttttgagtctcatttcttgctctaacc---ttcgactgttttttgaatttgg----attccacagMapped 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|193349004|gb|FK315266.1|FK315266EST: GAAGATGGGAGGCTCGAATGGGCCAATTTTTTGGGCAAAAAA GTATGTCTATCTGGGTTTGTTTGACACCGAGATTGAAGCTGCAAG
genomic: GAAGATGGGAGGCTCGAATGGGCCAA-TTTTTGGGC-AAAAAgtaagaccta ... gattcactagGTATGTCTATCTGGGTTTGTTTGACACCGAGATTGAAGCTGCAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGCGTAACTTTGCATAAGTGTGGAAGATGGGAGGCTCGAATGGGCCAATTTTTGGGCAAAAAgtaagacctaatctatcttctattatttatctattttatgtatcatgtcattcttgtgtgtgtttgttcatgccatgacgaaattaaattaatattttgatttggtttgattcactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG