Sequence
atgc intronic sequence ATGC exonic sequencegtaacatttttaaagccacttcaaaattactgaagattctttaagcccttgcttcagtgttgtgataattagtcattttctgttctcgatctcaatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g19560.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g19560.2 (Oryza sativa), 3'ss of exon 2
lower sequence: AC185415.3_FGT005 (Zea mays), 3'ss of exon 2
----------------gtaacatttttaaagccact-tcaaaattactgaagattcttta---agcccttgcttcagtgttgtgataattagtcattttctgttctcgatctcaatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
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gtatgggtcttaccaggtaacatttttttggccactaccaaaagtctttaagattgtttatatattcccaattacatttaaagaacacttagcc-ttgtttgctgtaaaattgaacagAAGGACAAAAGGAATGGGCGCCCAAAAATTTGGATCTATAGGGACAAAGTTTCCAATGAACCAAAGGGTGATGCTACAGTCACTTATGAGGATCCACATG
upper sequence: LOC_Os07g19560.2 (Oryza sativa), 3'ss of exon 2
lower sequence: AC233865.1_FGT006 (Zea mays), 3'ss of exon 2
gtaacatttttaaagccacttcaaaattactgaagattctttaagccctt---gcttcagtgttgtgataattagtcat-tttctgttctcgatct-caatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
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gtaacatttttg--gccactaccaaaaattttaagattgttcatacattttaaattccatttaaagaacacttagcctcgtctctgttgtaaaattgcaacagAAGGACAAAAGGACTGGGCGTCCAAAAATTTGGATATACAGGGACAAAGTTACTAATGAACCAAAGGGTGATGCAACAGTCACCTATGAGGATCCACATG
upper sequence: LOC_Os07g19560.2 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------------------gtaacatttttaaagccacttcaaaattactgaagattctttaagcccttgcttcagtgttgtgataattagtcattttctgttctcgatc-tcaatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
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gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttg---ttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATGMapped 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|88396700|gb|CI620033.1|CI620033EST: GCTGAATATTTTGGCACCATAGGGTTGCTAAAGGTATGGGGTCTTCCCAG AAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTT
genomic: GCTGAATATTTTGGCACCATAGGGTTGCTAAAGGTATGGGGTCTTCCCAGgtaacatttt ... atctcaatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcccttgcttcagtgttgtgataattagtcattttctgttctcgatctcaatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
ataattagtcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacatttttaaagccacttcaaaattactgaagattctttaagcccttgcttcagtgttgtgataattagtcattttctgttctcgatctcaatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA