Sequence
atgc intronic sequence ATGC exonic sequencegtccatctatacatctgtgtccatcactagtgtagggtagagtcgtatatgaactaccaaaccatgcgacaggttggtgacctttgtttcctaatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCATCCTTTGGGTACCAGAGACGAAGGGAAGAACCCTTGAAGAGATACAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G160430_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g49260.1 (Oryza sativa), 3'ss of exon 16
gtccatctatacatctgtgtccatcactagtgtagggtagagtcgtatatgaactaccaaaccatgcgacaggttggtgacctttgtttcctaatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCATCCTTTGGGTACCAGAGACGAAGGGAAGAACCCTTGAAGAGATACAGTG
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gtccgtatttctataaaaatcctctgttacca-agaataaaat----tctgaactgatttacc-tgataaaagttaa--atattttattttaatttcaacagGAACATTTTTGTCCTACATGATTGTGAGTGCTTTCACTCTCGTGTTCGTCATATTTTGGGTGCCAGAGACAAAGGGAAGAACTCTGGAGGAGATACAGTT
upper sequence: GRMZM2G160430_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g49270.1 (Oryza sativa), 3'ss of exon 16
-----------------------------gtccatctatacatctgtgtccatcactagtgtagggtagagtcgtatatgaactaccaaaccatgcgacaggttggtgacctttgtttcctaatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCATCCTTTGGGTACCAGAGACGAAGGGAAGAACCCTTGAAGAGATACAGTG
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gtacatacttctacttctctgatctctctttcctgcagtggaattgttcttttcgttgagcgagactagagtagaattctgaatatccaacc---tgac--gctcatgctatcttcttaaacatca-acagGGACCTTTGTGTCCTACATGGTCGTGAGTGCTTTCACCCTCGTGTTCGTCATCCTTTGGGTGCCAGAGACAAAAGGAAGAACTCTCGAAGAGATACAATGMapped 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|44900209|gb|CK826754.1|CK826754EST: CTGAACTGGAGCGCTGCAG GTTCATTTGCCTCCTACATGACGGTGAGTGCTTTGACTCTCGTCTTCGTCA
genomic: CTGAACTGGAGCGCTGCAGgtccatctat ... aatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCA
EST:
gi|5915334|gb|AW052975.1|AW052975EST: CTTTGGAATAACAATGACAGCAAATTTGCTTCTGAACTGGAGCGCTGCAG GTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCA
genomic: CTTTGGAATAACAATGACAGCAAATTTGCTTCTGAACTGGAGCGCTGCAGgtccatctat ... aatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCA
EST:
gi|60345309|gb|DN212282.1|DN212282EST: CTTTGGAATAACAATGACAGCAAATTTGCTTCTGAACTGGAGCGCTGCAG GTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCA
genomic: CTTTGGAATAACAATGACAGCAAATTTGCTTCTGAACTGGAGCGCTGCAGgtccatctat ... aatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgaactaccaaaccatgcgacaggttggtgacctttgtttcctaatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCATCCTTTGGGTACCAGAGACGAAGGGAAGAACCCTTGAAGAGATACAGTG
tcctaat putative branch site (score: 2)
tttccta CT-rich tract
tttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccatctatacatctgtgtccatcactagtgtagggtagagtcgtatatgaactaccaaaccatgcgacaggttggtgacctttgtttcctaatcgtgcagGTACATTTGCCTCCTACATGATGGTGAGTGCTTTCACTCTCGTCTTCGTCATCCTTTGGGTACCAGAGACGAAGGGAAGAACCCTTGAAGAGATACAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA