Sequence
atgc intronic sequence ATGC exonic sequence...attccttggatactcatcattctgtatatctctggttaacttcaatatgtacttgaaattgcggtcttacagaactcagtagaaatggagttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGCTGTGGACACCCGCACCGGTGAGCGGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g49430.1 (Oryza sativa), 3'ss of exon 1
----------------------------attccttggatactcatcattctgtatatctctggttaacttcaatatgtacttg--aaattgcggtcttacagaactcagtagaaatggagttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGCTGTGGACACCCGCACCGGTGAGCGGGT
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tttgtttatagggctattctactactgaagaagttttataaccagc-cactctgtatttttagttagctt-aatattttcttgcaaaattgtgatcttgtagAACACAGTGGAAATGGAGTTCTTCACTGAGTATGGAGAAGCAAGCCAGTACCAGATCCAGGAAGTCATTGGCAAAGGAAGTTATGGAGTAGTTGCTGCTG----------------------------
upper sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT2G01450.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------attccttggatactcatcattctgtatatctctggttaacttcaatatgtacttgaaattgcggt---cttacagaactcagta--------gaaatggagttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGCTGTGGACACCCGCACCGGTGAGCGGGT
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gtcttttggatctagggttttattatagcatttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG----------------------------------------
upper sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT2G01450.2 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------attccttggatactcatcattctgtatatctctggttaacttcaatatgtacttgaaattgcggt---cttacagaactcagta--------gaaatggagttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGCTGTGGACACCCGCACCGGTGAGCGGGT
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gtttgtcttttggatctagggttttattatagcatttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG----------------------------------------Mapped 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|29946815|gb|CB816339.1|CB816339EST: TCCGCGTGCCCAAGCGCAAGATGCCGCTGCCCGTCGAGAGCCACAGGAAG AGTACTGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGA
genomic: TCCGCGTGCCCAAGCGCAAGATGCCGCTGCCCGTCGAGAGCCACAGGAAGgtgagcgacc ... ttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtacttgaaattgcggtcttacagaactcagtagaaatggagttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGCTGTGGACACCCGCACCGGTGAGCGGGT
gtcttac putative branch site (score: 3)
ttcttcac putative PPT
ttgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attccttggatactcatcattctgtatatctctggttaacttcaatatgtacttgaaattgcggtcttacagaactcagtagaaatggagttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGCTGTGGACACCCGCACCGGTGAGCGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - -cattctg
- - - - - - - - - - - - - - - - - - - - - - atatgta