Sequence
atgc intronic sequence ATGC exonic sequencegtatgggtgttgtttcttactttcttaccatctgaattttgtgtatttatactgaagttgtgtttacgatgaatgccaactttcttttatgaatttatatttctgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 5
gtatgggtgttgtttcttactttcttaccatctgaattttgtgtatttatactgaagttgtgtttacgatgaatgccaactttcttttatgaatttatatttctgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
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----------------gtatgagaatctcgttctgacattctgttattatggtta--ttatgcttatgatgggtgccagcttt-tctcatgcattcttgcccctctctgtagGATAATCTCTCTGCAATTGATATTCTCTCAGCCTGCAATCTTGTAAATTATTTTGGGAAGATGGACCTTGGTGGCTCTGGTGTTGGTGAAATAGCAGTCT
upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 5
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgggtgttgtttct-tactttcttaccatctgaatt---ttgtgtatttatactgaagttgtgtttacgatgaatgccaactttctt---ttatgaatttatatttct---gactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
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gtacatcacttacatctgcatgctcttgttatgcaaactcatttgaataggtatatagaactggattagttagtgaataggtattttattgtgtttttgttctatgtctcttatggctacagGACAATCTTTCTGCAATTGATATTCTTTCCGCATGCAACCTTGTGAACTATTTTGGAAAGATGGTTCTTGGTGGTTCTGGTGTTGGCCAGATTACTCTCT
upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 4
gtatgggtgttgtttcttactttcttaccatctgaattttgtgtatttatactgaagttgtgtttacgatgaatgccaactttcttttatgaatttatatttc---tgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
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--------------ctgtttttacctaatatatatatatcctccagttttcttaagactggttttttgggatgtgttag-taccattagtgttttggtccttactgtggtgacagGACAACCTTTCTGCTGTTGATATTCTTTCGGCATGCAATCTGGTGAACTATTTTGGGAAAATGGTTCTTGGAGGTTCTGGTGTTGGTCAAATCACTCTCT
upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 5
lower sequence: PP1S18_235V6.1 (Physcomitrella patens), 3'ss of exon 3
gtatgggtgttgtttcttactttcttaccatctgaattttgtgtatttatactgaagttgtgtttacgatgaatgccaactttcttttatgaat--ttatatttctgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
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--------------atttctcttggtgagagttgtccctggcatacttggtctggcctttattattcttattgcacctattgtctctaatgcatgctttgctctgtggttgtagGATAATCTGTCTGCAATTGATATCCTAGCAGCCTGCAATCTTGTTAATTATTTTGGAAAAGTTGCCCTTGGAGGTAACGGCGTAGGCAACATTGCCTTGCMapped 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|91052429|gb|EB162847.1|EB162847EST: GTCTGCCTGTGTTCACCATTCATGGAAATCATGATGACCCTGCTGGAGTG GATAATCTTTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTAT
genomic: GTCTGCCTGTGTTCACCATTCATGGAAATCATGATGACCCTGCTGGAGTGgtatgggtgt ... ctgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgtttacgatgaatgccaactttcttttatgaatttatatttctgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
ttctgac putative branch site (score: 2)
tatttct CT-rich tract
aactttcttttatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgggtgttgtttcttactttcttaccatctgaattttgtgtatttatactgaagttgtgtttacgatgaatgccaactttcttttatgaatttatatttctgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG