Sequence
atgc intronic sequence ATGC exonic sequenceGGTACCTGAACAGTGCAGGGTTTCAAAAATTAAGTTACCTTCTTACTTTATGGAGTGGATCAATTTGAAGGATATCTATCTCAACTTCTATAACAGAAGGgtagctaaactcaacccattagcccattacatattgttctgttggaattcagatttgttgttcattttgttcatgatgagagtcaatgtgcatccatgaatatttaatatttattgtgttttgctag
Basic information
species | Oryza sativa |
transcript | LOC_Os06g24594.6 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g24594.6 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G143525_T03 (Zea mays), 5'ss of exon 3
GGTACCTGAACAGTGCAGGGTTTCAAAAATTAAGTTACCTTCTTACTTTATGGAGTGGATCAATTTGAAGGATATCTATCTCAACTTCTATAACAGAAGGgtagctaaactcaacccattagc-ccattacatattgttctgttggaattcagatttgttgttcattttgttcatgatgagagtcaatgtgcatccatgaatatttaatatttattgtgttttgctag
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GGTCCCTGAGCAGTGCAAGGTTTCAAAAATAAATTTACCTACCTATTTTATGGAATGGATTAACTTGAAGGATATCTACCTCAACTTCTATAACAGAAGGgtaattgaattgtaccatgtagtgcttttacctat-gatgaccaaaacttgataactcatgtgcagttgacttctgttttg--ccag-----------------------------------------
upper sequence: LOC_Os06g24594.6 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv19s0014g02090.t01 (Vitis vinifera), 5'ss of exon 5
GGTACCTGAACAGTGCAGGGTTTCAAAAATTAAGTTACCTTCTTACTTTATGGAGTGGATCAATTTGAAGGATATCTATCTCAACTTCTATAACAGAAGGgtagctaaactcaacccattagcccattacatattgttctgttgga--attcagatttgttgttcattttgttcatgatgagagtcaatgtgcatccatgaatatttaatatttattgtgttttgctag
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AGTCCCTCAGCAATGCAAAGTATCGAAGATGAAGCTTCCCCCATACTTTATGGAGTGGATCAACTTGAAGGATGTTTACCTAAACTTTTACAAGCGGAGGgtgagttcacataagtagct---ctatttcaggtttcttaaaaatattattccataccgttgcctccactat-cttggcagcag-cagttctccccctttatcag------------------------Mapped 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|3769180|gb|AU033207.1|AU033207EST: AATTTGAAGGATATCTATCTCAACTTCTATAACAGAAGG GCTACCGGAATGATGACAATGATGAGGGAGCTACAAATGCCAATCGTCGGA
genomic: AATTTGAAGGATATCTATCTCAACTTCTATAACAGAAGGgtagctaaac ... gttttgctagGCTACCGGAATGATGACAATGATGAGGGAGCTACAAATGCCAATCGTCGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTACCTGAACAGTGCAGGGTTTCAAAAATTAAGTTACCTTCTTACTTTATGGAGTGGATCAATTTGAAGGATATCTATCTCAACTTCTATAACAGAAGGgtagctaaactcaacccattagcccattacatattgttctgttggaattcagatttgttgttcattttgttcatgatgagagtcaatgtgcatccatgaatatttaatatttattgtgttttgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG