Sequence
atgc intronic sequence ATGC exonic sequence...atgtttagcgatacagatgattgtgcacttcaattattttaaactgatttattcacacacttttcgtagatgattttcctgatctaccattatattttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 3'ss of exon 1
---------atgtttagcgatacagatgattgtgcacttcaattattttaaactgatttattcacacacttttcgtagatgattttcctgatctaccattatattttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG
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caacagattgtgttgggcgatatagccatgaagttgtcgccattattttga-ctgcttcatccctttgggtttca-----gaactttctgatctgtc--tac-ttgtagGTACAATCCATATGTGCAGGCCAGAAGCAGGATAGATCAGCTCAAAAGGCTAGGCCATAGTGTAGACAAG
upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA04G36790.1 (Glycine max), 3'ss of exon 1
-atgtttagcgatacagatgattgtgcacttcaattattttaaactgatttattcacacacttttcgtagatgattttcctgatctaccattatat-----tttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG
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ctagtctagttttatt-----ttgtgtacaaccattctttgaagggtatacatt-gtgccttgtgctaatttttttatcatgatatacttatggaactggatttagGTATAATCCATATGTCCAAGCGAGGAGCAGGATAGATCAGCTTAAGCGTTTGGGTCATAGTGTAGACAAG
upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA06G18150.1 (Glycine max), 3'ss of exon 1
------atgtttagcgatacagatgattgtgcacttcaattattttaaactgatttattcacacacttttcgtagatgattttcctgatctaccattatattttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG
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ttagtcttgttttatttcatgtacaaacattc--tttgaaggatttacattgtgccttgtgctatttttttatgaatgatatgattg---tgtaactggattt-agGTATAATCCATATGTCCAAGCGAGGTGCAGGATAGATCAGCTTAAGCGTTTGGGTCATAGTGTAGACAAG
upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT5G50320.1 (Arabidopsis thaliana), 3'ss of exon 1
atgtttagcgatacagatgattg-tgcacttcaattattttaaactgatttattcacacacttttcgt---agatgattttcctgatctaccatt-ata-ttttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG
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----ttag--attgaaattatggactcagtttgctgttcatgtgatgagaaggatgcacgtttcatgtttaaattgattttgctaaagccctgtttatggtcttagGTACAATCCATATGTTCAGGCAAGAAGCAGGATAGATCAGCTGAAGCGGTTGGGTCACAGTGTAGATAAGMapped 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|149056996|gb|EE156553.2|EE156553EST: CAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAG GTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCT
genomic: CAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagc ... tatattttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttattcacacacttttcgtagatgattttcctgatctaccattatattttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG
tcctgat putative branch site (score: 3)
taccattatatttta 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
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atgtttagcgatacagatgattgtgcacttcaattattttaaactgatttattcacacacttttcgtagatgattttcctgatctaccattatattttagGTATAATCCATATGTGCAAGCCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG