Sequence
atgc intronic sequence ATGC exonic sequencegtaattcaccatctttatcatgtatatatatcagcattgcttgttcatgacaactgatttcatattctttgccagATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGTATCTTCGTTCGAATGGGAGCAAGGGATCATATTATGGCTGGCCAAAGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G421541_T01 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os09g24220.1 (Oryza sativa), 3'ss of exon 16
--------------------------gtaattcaccatctttatc---atgtatatatatcagcattgcttgttcatg----acaactgatttcatattctttgccagATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGTATCTTCGTTCGAATGGGAGCAAGGGATCATATTATGGCTGGCCAAAGTA
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gtaaccaattttattatccatcaacattgcttcctcacacgcagctcaatttttattttttatttttgcttcctcacacttcagaattacttcaaatttgtttggcagATTGGAGCAAATGTTCCTGCTGAAAGCTTTGAACTTTCTCTTGTTGACCGTATGTTTGTTCGAATGGGAGCAAGGGATCATATTATGGCTGGGCAAAGTA
upper sequence: GRMZM2G421541_T01 (Zea mays), 3'ss of exon 16
lower sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 16
gtaat-tcaccatctttatcatgtatatatatcagcattgcttgttcatgacaactgatttcatattctttgccagATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGTATCTTCGTTCGAATGGGAGCAAGGGATCATATTATGGCTGGCCAAAGTA
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gtaagattcttgtttttctgacttggtgatttttctcttgatctatttggtaatttcacctttggttccttcctagGTGGGAGCTGATGTGCCTGCAGAAAGCTTTGAGCTTTCACCTGTGGACCGCATCTTTGTTAGGATGGGTGCAAAAGATAATATTATGGCTGGCCAAAGTA
upper sequence: GRMZM2G421541_T01 (Zea mays), 3'ss of exon 16
lower sequence: PP1S152_6V6.1 (Physcomitrella patens), 3'ss of exon 16
----------------------------------------------------------------------------gtaattcaccatctttatcatgtatatatatcagcattgcttgttcatgacaactgatttcatattctttgccagATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGTATCTTCGTTCGAATGGGAGCAAGGGATCATATTATGGCTGGCCAAAGTA
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gtatcaatccgaaccttaggtctctttgatacaattttgctgacctagacatacatgagctttatttccatctacagaaggtctaacttggaactagagatatttcttacacttg--tgaaaataacatctc-cctcatatctggatacagGTAGGGGCGGACGTGCCAGCTGAGGAGTTGCAATTAGCGCCTGTCGATCAAGTTTTTGTTAGAATGGGAGCTAGGGATAATATTATGGCTGGGCAAAGCAMapped 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|61119372|gb|DN560333.1|DN560333EST: GTAAATCAACTCTCTTGCGCCAAGTTTGTCTTACCATTATACTGGCTCAG ATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGT
genomic: GTAAATCAACTCTCTTGCGCCAAGTTTGTCTTACCATTATACTGGCTCAGgtaattcacc ... tctttgccagATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatatatatcagcattgcttgttcatgacaactgatttcatattctttgccagATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGTATCTTCGTTCGAATGGGAGCAAGGGATCATATTATGGCTGGCCAAAGTA
aactgat putative branch site (score: 3)
ttctttgcc putative PPT
atttcatattcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcaccatctttatcatgtatatatatcagcattgcttgttcatgacaactgatttcatattctttgccagATTGGAGCAGATGTTCCTGCAGAAAAACTTGAGCTTTCTCTTGTTGACCGTATCTTCGTTCGAATGGGAGCAAGGGATCATATTATGGCTGGCCAAAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG