Sequence
atgc intronic sequence ATGC exonic sequence...tcaattgattgacatcagggcacataagcttgcttttatacttagtgatgaaatgaagacctgtgcctttacttttctaattcgattttactgcttgcagGATTCTCCTGTCTTCAATTTCATCAACAATCTCTCGCCTATACCACCACCTAAACCTTTAGACTCAGCACATAATGTGCAGCTATTCAAGTCATCAGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G322090_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g41230.2 (Oryza sativa), 3'ss of exon 1
--tcaattgattgacatcagggcacataagcttgcttttatacttagtgatgaaatgaagacctgtgcctttacttttctaattcgattttactgcttgcagGATTCTCCTGTCTTCAATTTCATCAACAATCTCTCGCCTATACCACCACCTAAACCTTTAGACTCAGCACATAATGTGCAGCTATTCAAGTCATCAGACT
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atacgcgtgaa-gctattatgaaatgaagaccttccattttaattgttg-tcaaatgaaaaaccttgcaatctactctctaattcgttttttgtgcctgcagGACTCTCCTGTCTTCAATTTCATCAACAGCCTATCTCCTATACCACCACCTAAGCCTTCAGACTCAGCACATAATGTTCAACTATTCAAGTCATCAGACT
upper sequence: GRMZM2G322090_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0030g01800.t01 (Vitis vinifera), 3'ss of exon 1
--tcaattgattgacatcagggcacataagcttgcttttatacttagtgatgaaatgaagacctgtgcctttac-ttttctaattcgatttta--ctgcttgcagGATTCTCCTGTCTTCAATTTCATCAACAATCTCTCGCCTATACCACCACCTAAACCTTTAGACTCAGCACATAATGTGCAGCTATTCAAGTCATCAGACT-
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ttgaaatctattctcttctg-----atgattctttttttatttttcccattgcttagtgggtttataaggtcatgccctaaaaaacaatccttatccatatgcagGATTCTCCTGTCTTTAATTACATCAACAGTCTCTCACCTATTAAGCCAGTCAAGTCCATACCCACTGATCA-GACATTCAGCTCACTTAGTTTTGCATCTCMapped 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|18964084|gb|BM660800.1|BM660800EST: GCCGGGTTCGAG GATTCTCCTGTCTTCAATTTCATCAACAATCTCTCGCCTATACCACCACCT
genomic: GCCGGGTTCGAGgtccgccatc ... ctgcttgcagGATTCTCCTGTCTTCAATTTCATCAACAATCTCTCGCCTATACCACCACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgaaatgaagacctgtgcctttacttttctaattcgattttactgcttgcagGATTCTCCTGTCTTCAATTTCATCAACAATCTCTCGCCTATACCACCACCTAAACCTTTAGACTCAGCACATAATGTGCAGCTATTCAAGTCATCAGACT
ttctaat putative branch site (score: 2)
ttttact putative PPT
tttacttttctaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaattgattgacatcagggcacataagcttgcttttatacttagtgatgaaatgaagacctgtgcctttacttttctaattcgattttactgcttgcagGATTCTCCTGTCTTCAATTTCATCAACAATCTCTCGCCTATACCACCACCTAAACCTTTAGACTCAGCACATAATGTGCAGCTATTCAAGTCATCAGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT