Sequence
atgc intronic sequence ATGC exonic sequence...gtcatcctcgtgataccttctatagtaccgattgtaaatgtaaattttgcaacgagtcatatactgtaaaacctggtctaattaagagcttgctttatagGAATATCCAGGTTGCAAGGTTTATGGCCAGACTGCAACCACAGATCATCACAGTGAATTGACTGATATTGGTATCATTCCCTCCTTGAAGGGGTCCGTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017666_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g26970.4 (Oryza sativa), 3'ss of exon 2
gtcatcctcgtgataccttctatagtaccgattgtaaatg-taaattttgcaacgagtcatatac-tgtaaaacctggtctaattaaga-gcttgctttatagGAATATCCAGGTTGCAAGGTTTATGGCCAGACTGCAACCACAGATCATCACAGTGAATTGACTGATATTGGTATCATTCCCTCCTTGAAGGGGTCCGTAC
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---agggatggtatatatgctgaattgctgataatattttctgctttccttttctactagtaaagatgtaaaaatatgtctgatagctttgcatattttacagGAGCATCCAGGTTGCAAAATTTTTGGTCATACTGCAACCACAGATCATCACAGTGAATTGACTCAACTTGGGATCATTCCCTCCTTGAAAGGACCAGCTG
upper sequence: GRMZM2G017666_T01 (Zea mays), 3'ss of exon 3
lower sequence: 13113.m00241 (Oryza sativa), 3'ss of exon 1
gtcatcctcgtgataccttctatagtaccgattgtaaatgtaaattttgcaacgagtcat--atactgtaaaacctggtctaattaaga-gcttgctttatagGAATATCCAGGTTGCAAGGTTTATGGCCAGACTGCAACCACAGATCATCACAGTGAATTGACTGATATTGGTATCATTCCCTCCTTGAAGGGGTCCGTAC
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---agggatggtatatatgctgaattgctgataatattttctgctttccttttctgctagtaaagatgtaaaaatatgtctgatagctttgcatattttacagGAGCATCCAGGTTGCAAAATTTTTGGTCATACTGCAACCACAGATCATCACAGTGAATTGACTCAACTTGGGATCATTCCCTCCTTGAAAGGACCAGCTGMapped 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|211446691|gb|FL216191.1|FL216191EST: AGTTGGGCCTGGCGTGCTCGGCCGAA-TCGTCGCTGAGATGTGGAAACAG GAATATCCAGGTTGCAAGGTTTATGGCCAGACTGCAACCACAGATCATCAC
genomic: AGTTGGGCCTGGCGTGCTCGGACGAATTCGTCGCTGAGATGTGGAAACAGgttgggtact ... tgctttatagGAATATCCAGGTTGCAAGGTTTATGGCCAGACTGCAACCACAGATCATCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgcaacgagtcatatactgtaaaacctggtctaattaagagcttgctttatagGAATATCCAGGTTGCAAGGTTTATGGCCAGACTGCAACCACAGATCATCACAGTGAATTGACTGATATTGGTATCATTCCCTCCTTGAAGGGGTCCGTAC
gtctaat putative branch site (score: 3)
cttgcttt putative PPT
tctaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatcctcgtgataccttctatagtaccgattgtaaatgtaaattttgcaacgagtcatatactgtaaaacctggtctaattaagagcttgctttatagGAATATCCAGGTTGCAAGGTTTATGGCCAGACTGCAACCACAGATCATCACAGTGAATTGACTGATATTGGTATCATTCCCTCCTTGAAGGGGTCCGTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG