Sequence
atgc intronic sequence ATGC exonic sequencegtaattgttacatctttgaatcatttgtttgtctgtcttctataacctatgggatacaataggtttttaattacttttgtttgtttgtatcacagGTCCGAGTCTCTGCTGTACTAACAAATGCTCCATATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G025231_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 9
-------gtaattgtt---acatctttgaatcatttgtttgtctgtcttctataacctatgggatacaataggtttttaattacttttgtttgtttgtatcacagGTCCGAGTCTCTGCTGTACTAACAAATGCTCCATATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
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gtaaaagataatttctttgatgtttttttggctttccataacctgtactcctgtattaacaaaatatagtgtatgtttaatttttttgctttgttgat-tcacagGTCCGAGTATCTGCTGTACTAACTAATGCTCCATACATGCTCAACTTGGATTGTGATCATTACATCAACAATAGCAAGGCTATAAAGGAAGCAATGTGTT
upper sequence: GRMZM2G025231_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 9
---gtaattgttacatctttgaatcatttgtttgtctgtcttctataacctatgggatacaataggtttttaa--ttacttttgtttgtttgt--atca--cagGTCCGAGTCTCTGCTGTACTAACAAATGCTCCATATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
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gtaaatattagtaaagcgacaactgaattccgtatgt-tcttatgcagtctacaaaaatcttataatttttacctttatcttcattggcttgcccatcaaatagGTCCGAGTCTCTGCTGTGCTCACAAATGCACCATATCTGTTGAACTTGGATTGTGATCACTACATCAATAACAGTAAGGCTCTTAGGGAGTCTATGTGTT
upper sequence: GRMZM2G025231_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 9
gtaattgttacatctttgaatcatttgtttgtctgtcttctataacctatgggatacaataggtttttaattacttttg---tttgtttgtatcacagGTCCGAGTCTCTGCTGTACTAACAAATGCTCCATATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
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gta--tgtagcttggtaaaatcac------atctattctaggtgtcctgataaagatgtctgaattttatttcctggtgggcttattctttaaaacagGTCCGAGTCTCTGCTGTTCTTACGAATGCACCTTATCTATTGAATTTGGATTGTGATCACTACTTCAACAACAGCAAGGCTCTCAAGGAGGCAATGTGTTMapped 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|211308258|gb|FL341177.1|FL341177EST: AACGACCAGGCTATAACCATCATAAGAAAGCTGGTGCTATGAATGCATTG GGTCCGAGTCTCTGCTGTACTAACAAATGCTCCCATATT
genomic: AACGACCAGGCTATAACCATCATAAGAAAGCTGGTGCTATGAATGCATTGgtaattgtta ... tgtatcacagG-TCCGAGTCTCTGCTGTACTAACAAATGCTCC-ATATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataacctatgggatacaataggtttttaattacttttgtttgtttgtatcacagGTCCGAGTCTCTGCTGTACTAACAAATGCTCCATATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
ttttaat putative branch site (score: 3)
tttgttt putative PPT
tttttaattacttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgttacatctttgaatcatttgtttgtctgtcttctataacctatgggatacaataggtttttaattacttttgtttgtttgtatcacagGTCCGAGTCTCTGCTGTACTAACAAATGCTCCATATTTGTTAAACTTGGATTGTGATCACTACATCAACAACAGCAAGGCTATAAAGGAAGCAATGTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA