Sequence
atgc intronic sequence ATGC exonic sequence...cgtcggtacgttttccttcttatgccctgtgggtacccgattgccatccctggatatgtttatatgtttgccctgatatttactactttggtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G142693_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g10470.1 (Oryza sativa), 3'ss of exon 4
cgtcggtacgttttccttcttatgcc-ctgtgggtacccgattgccatccctggatatgtttata-tgtttgccctgatatttactactttggtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
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-----gtaagttttcttttttgtggtatcgtcacaaatctcacatgaacacagtacacactgacaatgatggtcctaatac--actcttttggtggtcccagAGGAAATGGATTGGGACAAGAATGGAACGGTGACCTTCAAGGAGTTCCTCTTCGCTTTTACTCGTTGGGTGGGGATTGATGATAACGAAGATGACGACGA
upper sequence: GRMZM2G142693_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
cgtcggtacgttttccttcttatgccctgtgggtacccgattgccatccctggatatgtttatatgtttgccctgatattt-actactttggtgaa----tacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
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-----atacagtagcaactctaaatcaaccttctctttgttttttcttcctagctagtattttatttactaataagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
upper sequence: GRMZM2G142693_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
cgtcggtacgttttcc----ttcttatgccctgtgggtacccgattgccatccctggatatgtttatatgtttgccctgatatttactactttggtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
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tgccagtagatggttagaagctttgatgatttcctcgaaca-ggctccaatttttttccataataatctatttcacttggcct---cttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
upper sequence: GRMZM2G142693_T02 (Zea mays), 3'ss of exon 4
lower sequence: EFJ07984 (Selaginella moellendorffii), 3'ss of exon 3
cgtcggtacgttttccttcttatgccctgtgggtacccgattgccatccctggatatgtttatatgtttgccctgatatttactactttggtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
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-------------------------------gtaactctcaagaaaaaaccagaaacttccgtaacttt--cttcatgcttctcgtactcg-----acagAGGAAATGGATTGGGACAAGAATGGGATGATCACGTTTAAGGAGTTTCTGTTTGCTTTTACTGATTGGGTTGGGATCGAAGAAGAAGAAGATGCAGACGAMapped 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|28566542|gb|CB278190.1|CB278190EST: GAGAGCGCTCTTCAGGGCGCATAGGCATGAGAAGATTTG AGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGGAATTCCTT
genomic: GAGAGCGCTCTTCAGGGCGCATAGGCATGAGAAGATTTGgtgagtcatc ... gtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGG-AATTCCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccctggatatgtttatatgtttgccctgatatttactactttggtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
ccctgat putative branch site (score: 4)
atatgtttatatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgtcggtacgttttccttcttatgccctgtgggtacccgattgccatccctggatatgtttatatgtttgccctgatatttactactttggtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA