Sequence
atgc intronic sequence ATGC exonic sequencegtaaaccagttcaattcgagtcagttagtaacttccttatcctcaatcaatcgtacgagcatcttgctgatgcactgttgtatgtttttttgggaaattagGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATTGGGGACATGGATGTTGGGGAGTACATTGTGCCCATTCCACATGTCAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G113016_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g49040.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------gtaaaccagttcaattcgagtcagttagtaact---tccttatcctcaatcaatcgtacgagcatcttgctgatgcactgttgtatgtttttttgggaaattagGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATTGGGGACATGGATGTTGGGGAGTACATTGTGCCCATTCCACATGTCAAGC
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gtaccaattcgccccgcagtttggtagatgatggccagattgaaaaaaagagaggcttcgcttttgcgatgcattgctatgtgaagctttgtttccagtcggccatgttc-tgttttg-tgatgcattgttgttgtttgatgctttgttctagGTTGGTCCTCTCCGGTGCTGGCCAGGTGGCCTGTGCCTTTCAAGATCTATCGGGGACATGGATGTCGGGGAGTTCATTGTGCCGATTCCACATGTGAAGC
upper sequence: GRMZM2G113016_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G29060.1 (Glycine max), 3'ss of exon 4
gtaaaccagttcaattcgagtcagttagtaacttccttatcctcaatcaatcgtacgagcatcttgctgatgcactgttgtatgtttttttgggaaattagGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATTGGGGACATGGATGTTGGGGAGTACATTGTGCCCATTCCACATGTCAAGC
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------------------gtacaat--gtaatctttctattcctttctaatc--aggactttttcactagcctgttttggttccttaatacatcta--tagGTAGGGCCTCTTCGCTGTTGGCCTGGTGGATTGTGCCTTTCTAGATCAATTGGTGACACAGACGTGGGAGAATTTATTGTCCCAATACCACATGTCAAGC
upper sequence: GRMZM2G113016_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G38270.1 (Glycine max), 3'ss of exon 4
gtaaaccagttcaattcgagtcagttagtaacttccttatcctcaatcaatcgtacgagcatcttgctgatgcactgttgtatgtttttttgggaaatta--gGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATTGGGGACATGGATGTTGGGGAGTACATTGTGCCCATTCCACATGTCAAGC
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-------------------gtatggt-gtaatctttatattcctttctaatc-----aggactttttaactagcctgttttg-gttccttaatacatttatagGTAGGGCCTCTTCGCTGCTGGCCTGGTGGATTGTGCCTTTCTAGATCAATTGGTGACACGGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCMapped 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|71322508|gb|DR797928.1|DR797928EST: CGGCCAGCGGTGGGGAAGTAGGCCGGCTCAATCTCTTCCGTGGTCAGGAG GTTGGTCCTCT
genomic: CGGCCAGCGGTGGGGAAGTAGGCCGGCTCAATCTCTTCGGTGGTCAGGAGgtaaaccagt ... gggaaattagGTTGGTCCTCT
EST:
gi|89251895|gb|DY623681.1|DY623681EST: CGGCCAGCGGTGGGGAAGTAGGCCGGCTCAATCTCTTCGGTGGTCAGGAG GTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATT
genomic: CGGCCAGCGGTGGGGAAGTAGGCCGGCTCAATCTCTTCGGTGGTCAGGAGgtaaaccagt ... gggaaattagGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATT
EST:
gi|93284247|gb|EB676511.1|EB676511EST: CGGTCAGCGGTGGGGAAGTAGGCCGGCTCAATCTCTTCGGTGGTCAGGAG GTTGGTCCTCTCCGGTGCTGGCCTGGTGCCTTGTGCCTTTCAAGATCCATT
genomic: CGGCCAGCGGTGGGGAAGTAGGCCGGCTCAATCTCTTCGGTGGTCAGGAGgtaaaccagt ... gggaaattagGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatcgtacgagcatcttgctgatgcactgttgtatgtttttttgggaaattagGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATTGGGGACATGGATGTTGGGGAGTACATTGTGCCCATTCCACATGTCAAGC
tgctgat putative branch site (score: 3)
tttttttg putative PPT
ttgtatgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaccagttcaattcgagtcagttagtaacttccttatcctcaatcaatcgtacgagcatcttgctgatgcactgttgtatgtttttttgggaaattagGTTGGTCCTCTCCGGTGCTGGCCTGGTGGCTTGTGCCTTTCAAGATCCATTGGGGACATGGATGTTGGGGAGTACATTGTGCCCATTCCACATGTCAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA