Sequence
atgc intronic sequence ATGC exonic sequence...gttggttagggatggaagagtgcagtttttttctttctttttctcctggtgtaatgaatatgcattattctgttgacacttttgtccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 4
---gttggttagggatgga---agagtgcagtttttttctttctttttctcctggtgtaatgaatatgcattattctgttgacacttttgtccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
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caggtcatttgcagccatatacagaaagca-ccaaatgatatctgtgtcttctcttatacc----atttatcata-tattgatattactgcctctttgctgtgcagAAACTAATATTTGATAGACCTGAGCCTGGTGTAAGGAAAATTGTTCTTGCAACCAATTTGGCTGAAACAAGTATTACTATCAATGATGTAGTTTTTGTGG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 10
-gttggttagggatggaagagtgcagtttttttctttctttttctcctggtgtaatgaatatgcattattctgttgacacttttgtccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
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aatcacatctctatttcaccatatatttctagtcatatttatgcatttca-ataatgtatataataaattttgttttgttcccattttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 10
gttggttagggatggaagagtgcagtttttttctttctttttctc---ctggtgtaatgaatatgcattattctgttgaca-cttttgtccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
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----tctaactgcatttttttataatccatgtgaggattgaaatcagtctcatatattatgcctctatcagttcctcaaaagtttttatttggaattcatgcagCGGTTAATATTTGATGAGCCTCGAGATGGGGTAAGGAAAATAGTGCTAGCCACGAATATTGCTGAGACAAGTATCACAATTAATGATGTGGTTTTTGTTG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 9
gttggttagggatggaagagtgcagtttttttctttctttttctcctggtgtaatgaatatgca---ttattctgttgacacttttgt-ccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
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----gaaacttgctttaaattatatatgatttctaacttggttaaatggtaatgtttgtttccacccttgttttcctgaccattttgaactggtttgcatgcagAGGTTAATATTTGATAAGCCGGAAGATGGAGTAAGGAAAATAGTTCTTGCTACCAACATGGCTGAGACTAGTATCACCATTAATGATGTGGTTTTTGTGGMapped 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|31351858|gb|CD436215.1|CD436215EST: GCGCAGTTTTGTTGCTCGCTTGTCATGGCTCTATGGCCAGTTCAGAGCAG AAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCC
genomic: GCGCAGTTTTGTTGCTCGCTTGTCATGGCTCTATGGCCAGTTCAGAGCAGgtattaccaa ... ttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctggtgtaatgaatatgcattattctgttgacacttttgtccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
tgttgac putative branch site (score: 3)
cttttgtccacttttt CT-rich tract
taatgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggttagggatggaagagtgcagtttttttctttctttttctcctggtgtaatgaatatgcattattctgttgacacttttgtccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
- - - - - - - - - - tgcagtt
- - - - - - - - - - - - - - - - - - - - - - cctggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgttga