Sequence
atgc intronic sequence ATGC exonic sequencegtatgtggactctgttaagtatagtgtatcgcaaaatatgatttgtcgtggcgaaaaaaactgtagtatattccttctgataatccacccttggatgtttttaacagAATTTCCTGTTTAGCACTAGGGAAGAGCATTCTCCTATGAAGATAATTGATTTTGGTCTCTCAGATTTTATAAGACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G100560_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g36710.1 (Oryza sativa), 3'ss of exon 4
gtatgtggactctgttaagtatagtgtatcgcaaaatatgatttgtcgtggcgaaaaaaactgtagtatattccttctgataatccacccttggatgtttttaacagAATTTCCTGTTTAGCACTAGGGAAGAGCATTCTCCTATGAAGATAATTGATTTTGGTCTCTCAGATTTTATAAGACCAG
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gtctgtcttctctgtttagtaca---taaactgaattgtg-tttatcttgttacaaatatttttgatatatcccttctaataattctacccttgat---cctatcagAATTTCCTATTCAGCACTAGAGATGACCATTCACCTATGAAGATCATCGACTTTGGACTTTCTGATTTTATACGGCCAG
upper sequence: GRMZM2G100560_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------------------------gtatgtggactctgttaagtatagtgta-tcgcaaaatatgatttgtcgtggcgaaaaaaactgtagtatattccttctgataatccac------ccttggatgtttttaa-------cagAATTTCCTGTTTAGCACTAGGGAAGAGCATTCTCCTATGAAGATAATTGATTTTGGTCTCTCAGATTTTATAAGACCAG
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gtatagtctaatgaacataatatatatgttattaatttaactctattgttgtatatggaatgaactgatagtcttctgcttgcacagtcaactgtgtgcttatgtgccattgtgtctaattgtcattcccactttcaacaaattactttatttacttctaattctctgcagAATTTTCTTTTTACCACAAGGGATGAGGATGCTCCGATGAAGGTTATTGATTTTGGTCTTTCTGATTTTATTAGAACAGMapped 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|211246069|gb|FL212418.1|FL212418EST: TTGCCTTTTGCCATCTTCAGGGTGTTGTTCACCGTGATCTGAAGCCAGAG AATTTCTTATTCAGCACTAGGGAAGAGCATTCTCCTATGAAGATAATTGAT
genomic: TTGCCTTTTGCCATCTTCAGGGTGTTGTTCACCGTGATCTGAAGCCAGAGgtatgtggac ... tttttaacagAATTTCCTGTTTAGCACTAGGGAAGAGCATTCTCCTATGAAGATAATTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaaaaactgtagtatattccttctgataatccacccttggatgtttttaacagAATTTCCTGTTTAGCACTAGGGAAGAGCATTCTCCTATGAAGATAATTGATTTTGGTCTCTCAGATTTTATAAGACCAG
ttctgat putative branch site (score: 3)
tgttttt putative PPT
atgtttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtggactctgttaagtatagtgtatcgcaaaatatgatttgtcgtggcgaaaaaaactgtagtatattccttctgataatccacccttggatgtttttaacagAATTTCCTGTTTAGCACTAGGGAAGAGCATTCTCCTATGAAGATAATTGATTTTGGTCTCTCAGATTTTATAAGACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA