Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatatctccattctctctgtggttatgttccttttgtgttgattggctaaaaaggttcaattttgtgtggcggaaatagGTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATCTGTACTATTACAATGGCCAAAAGCTCCCTTTTGCAGCTGCTCAAATTGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G821551_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 3'ss of exon 2
-----------------------------gtgagaatatctccattctctctgtggttatgttccttttgtgttgattggctaaaaaggttcaattttgtgtggcggaaatagGTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATCTGTACTATTACAATGGCCAAAAGCTCCCTTTTGCAGCTGCTCAAATTGGG
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gtaagaatatcaatgttcactttttttaacccaagagattaatgttcactgtttaattctgttg---ttatgctgattggctgaatgtgttcaattttgtgtga-acaaacagGTATATGAGACCAGAAACAGCACAGGGTATTTTTGTCAACTTCAAGGACTTGTACTATTACAACGGGCAAAAGCTCCCTTTCGCAGCAGCTCAAATCGGG
upper sequence: GRMZM5G821551_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT1G29880.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagaatatctcc-------attctctctgtggttatgttccttttgtgttgattggctaaaaaggttcaattttgtgtggcggaaatagGTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATCTGTACTATTACAATGGCCAAAAGCTCCCTTTTGCAGCTGCTCAAATTGGG
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gtgagtatttttcatgttataatcatttctgagccactttctttcctgagtttgtta-tcaaattactcctcttttgtgtttc------agTTACATGCGTCCTGAAACTGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGT
upper sequence: GRMZM5G821551_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv17s0000g00160.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------------------------------gtgagaatatctccattctctctgtggttatgttccttt-tgtgttgattggctaaaaaggttcaattttgtgtggcggaa------atagGTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATCTGTACTATTACAATGGCCAAAAGCTCCCTTTTGCAGCTGCTCAAATTGGG
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gtaaatatatgattccaattcaaacaaatttacctatttcgtgataagctcatatgcaatttattctgcaaccagcctctgtttattgtcacttgttttatcttcataggtgtgcagccttatattatcctgtcttttttcttacatacaatctactgtagGTATATGCGGCCAGAGACAGCACAGGGCATTTTTGTAAACTTCAAGGATCTGTATTACTATAATGGGAACAAGCTCCCTTTTGCTGCAGCTCAAATTGGTMapped 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|32803916|gb|CD956152.1|CD956152EST: TTCAATCTTATGTTCCAGACATCTATTGGCCCCACTGGTCTTAGCGTGGG GTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATC
genomic: TTCAATCTTATGTTCCAGACATCTATTGGCCCCACTGGTCTTAGCGTGGGgtgagaatat ... gcggaaatagGTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttccttttgtgttgattggctaaaaaggttcaattttgtgtggcggaaatagGTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATCTGTACTATTACAATGGCCAAAAGCTCCCTTTTGCAGCTGCTCAAATTGGG
ggctaaa putative branch site (score: 3)
ttcaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatatctccattctctctgtggttatgttccttttgtgttgattggctaaaaaggttcaattttgtgtggcggaaatagGTATATGCGACCAGAGACCGCACAGGGTATTTTTGTAAACTTCAAGGATCTGTACTATTACAATGGCCAAAAGCTCCCTTTTGCAGCTGCTCAAATTGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT