Sequence
atgc intronic sequence ATGC exonic sequence...cttagcttgtaatatgattaaacacgaacagttcattattagacttgccacacattttatatggccgtgatatttctcacgagactcgtcgatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTACTTCATCAAAGGTGGAATTGTCACAGTGATCAAGGATGCTTTACTCCCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g25734.1 (Oryza sativa), 3'ss of exon 8
cttagcttgtaatatgattaaacacgaacagttcattattagacttgccacacattttatatggccgtga-tatttctcacgagactcg--tcgatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTACTTCATCAAAGGTGGAATTGTCACAGTGATCAAGGATGCTTTACTCCCTA
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--aaaataattgcattgcaaaat-cttgcatctctatgttcttctaaacgtaaaactgctttctgcgtaactgtatgtaacaacaattgactcatggatgcagATAATCAATGTTGACAATGTCCAAGAAGCTGCAAGAGAGACTGATGGATACTTTATCAAAAGTGGCATTGTTACCGTGATCAAGGATGCTTTGCTCCCTA
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 8
--cttagcttgtaatatgattaaacacgaacagttcattattagacttgccacacatttt-atatggccgtgatatttctcacgagactcgtcgatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTACTTCATCAAAGGTGGAATTGTCACAGTGATCAAGGATGCTTTACTCCCTA
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atgttttcttttcatactgtgttgc-cataca--ttgttttcattcatgtgacatgttacgagatattttaaatctaatctatggtttgtttccaatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTATTTCATAAAAAGTGGGATTGTCACAGTAATCAAGGATGCTTTAATTCCTA
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 8
--cttagcttgtaatatgattaaacacgaacagttcattattagacttgccacacatttt-atatggccgtgatatttctcacgagactcgtcgatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTACTTCATCAAAGGTGGAATTGTCACAGTGATCAAGGATGCTTTACTCCCTA
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gataaaaatggctttctcactaaatatatcca---tattttcattcatgtgacatgttacgagatattttaaatctaatctatcgtttgtttccaattctcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTATTTCATAAAAAGTGGGATTGTCACAGTAATCAAGGATGCTTTAATTCCTAMapped 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|71771872|gb|DR969809.1|DR969809EST: TCAGAAAAGCAATCATTGACAAGAATGCTCGAATTGGAGATAATGTGAAG ATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTAC
genomic: TCAGAAAAGCAATCATTGACAAGAATGCTCGAATTGGAGATAATGTGAAGgtatttcaaa ... gatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTAC
EST:
gi|32941128|gb|CF045947.1|CF045947EST: TCAGAAAAGCAATCATTGACAAGAATGCTCGAATTGGAGATAATGTGAAG ATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTA
genomic: TCAGAAAAGCAATCATTGACAAGAATGCTCGAATTGGAGATAATGTGAAGgtatttcaaa ... gatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgccacacattttatatggccgtgatatttctcacgagactcgtcgatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTACTTCATCAAAGGTGGAATTGTCACAGTGATCAAGGATGCTTTACTCCCTA
ttctcac putative branch site (score: 2)
acattttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttagcttgtaatatgattaaacacgaacagttcattattagacttgccacacattttatatggccgtgatatttctcacgagactcgtcgatcttgcagATACTCAACGCTGACAATGTTCAAGAAGCTGCAAGGGAGACAGACGGGTACTTCATCAAAGGTGGAATTGTCACAGTGATCAAGGATGCTTTACTCCCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG