Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatgtatgtatgtatgtatgtatgtatgtatgtataccttccataccacttcttcaattcgtcaggaagctgactgtgttccttcagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCCGTACCCGATCGACATGGAGTTCCGGCCACCGTGCATGGTCCTATCGACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G171390_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 3'ss of exon 7
gtatgtatgtatgtatgtatgtatgtatgtatgtatgtataccttccataccacttcttcaattcgtcaggaagctgactgtgttcct-----tcagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCCGTACCCGATCGACATGGAGTTCCGGCCACCGTGCATGGTCCTATCGACC
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--------gtatttacatacatatcaac-taaggacaactggccattgaaaatttttcacaaatcatcatgctgatg-ctatattcatctttgtcagCTTGGTGAAGTTCTTGACACCTGCATCTGGGCTCCAAGGGTACTGGGATCCTTACCCCATCGACATGGAGTTTCGACCGCCATGCATGGTCTTGTCAACC
upper sequence: GRMZM2G171390_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 7
--------------------------gtatgtatgtatgtatgtatgtatgtatgtatgtatgtataccttccataccacttcttcaattcgtcaggaagctgactgtgttcctt---cagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCCGTACCCGATCGACATGGAGTTCCGGCCACCGTGCATGGTCCTATCGACC
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gtatttacatacatatattttcacagccatgtggaattcttttttttttttttagaaaatggatagccatgtggaaatgtcttcagaaatcatcatgctgatg-ctatgttcatttcccagCTTGGTGAAGTTCTTGACACCTTCATCTGGGCTTCAAGGATACTGGGATCCATACCCGATCGACATGGAATTTCGACCACCATGCATGGTGTTGTCAACC
upper sequence: GRMZM2G171390_T04 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA04G42840.1 (Glycine max), 3'ss of exon 7
gtatgtatgtatgtatgtatgtatg-tatgtatgtatg-tataccttccataccacttcttcaattcgtcaggaagc-------tgactgtgttccttcagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCCGTACCCGATCGACATGGAGTTCCGGCCACCGTGCATGGTCCTATCGACC
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-tggataaaacgagattaatttaaggcataaatctaagctttatcttctgaaaagatacatttcttggtcacgtagtctcagcatggatttgaacttgcagCTTGGTGAAATTTTTGACACCTGCATCTGGCCTACAAGGATACTGGGACCCCTATCCAATTGATATGGAGTTTCGGCCACCTTGCATGGTTCTATCAACC
upper sequence: GRMZM2G171390_T04 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G11920.1 (Glycine max), 3'ss of exon 7
---gtatgtat---gtatgtatgtatgtatgtatgtatg-tatgtataccttccataccacttcttcaattcgtcaggaagc-tgactgtgttccttcagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCCGTACCCGATCGACATGGAGTTCCGGCCACCGTGCATGGTCCTATCGACC
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gatggatgaacaaggtttaatttaaggcgtaaatctaagctttatcttcttgatacatttcttggtcagttaatcccattgcatggatttgaacttgcagCTTGGTGAAATTCTTGACACCTGCATCTGGCCTACAAGGATACTGGGACCCCTATCCAATTGATATGGAGTTTCGACCACCTTGCATGGTTCTATCAACCMapped 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|71764822|gb|DR962759.1|DR962759EST: GCTCCTTTCACACACACGTCCACCTTTGCCAAGGGCTGGAGTGTGCCAAG TTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCTAAGGGTACTGGGACTC
genomic: GCTCCTTTCACACACACGTCCACCTTTGCCAAGGGCTGGAGTGTGCCAAGgtatgtatgt ... gttccttcagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataccttccataccacttcttcaattcgtcaggaagctgactgtgttccttcagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCCGTACCCGATCGACATGGAGTTCCGGCCACCGTGCATGGTCCTATCGACC
agctgac putative branch site (score: 3)
tgttccttc putative PPT
ttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatgtatgtatgtatgtatgtatgtatgtatgtataccttccataccacttcttcaattcgtcaggaagctgactgtgttccttcagTTTGGTCAAGTTCCTGACACCCGCGTCTGGGCTCCAAGGGTACTGGGACCCGTACCCGATCGACATGGAGTTCCGGCCACCGTGCATGGTCCTATCGACC
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