Sequence
atgc intronic sequence ATGC exonic sequencegtttgacgtctgtaaggtctttcctttttatatcctccggtgttgtttactgaaccgttgtagctctgactgaattatgcttgtaaaatgttgactcaagGGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATGAACTACATTGAGTGCATCAATGTAGATTTCAAATCAACAAGAAAGGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G018508_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g06950.1 (Oryza sativa), 3'ss of exon 8
gtttgacgtctgtaaggtctttcctttttatatcctccggtgttgtttactgaaccgttgtagctctgactgaattatgcttgtaaaatgttgactcaagGGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATGAACTACATTGAGTGCATCAATGTAGATTTCAAATCAACAAGAAAGGAAT--------------------------------------------------------------------------------------------
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gtttgacatctgtaaggtctttcctttt-atgtattc-ggtgttgtttttcgagtagt-gtaactctgactgaattatgcttgtaaatt-ttgattcaagggaactgttgtggagggcacaatacaacaattatttgaagggcatcacatgaattatatcgagtgtatcaatgtggatatgaaatcaactagAAAGGAATCCTTCTATGGCAAGTGATTGTGTTATCGCATCATGGTCATTATGTCCAAACATGCCCCTTTGACCTGATTGGTGTACACTCCAATGCAGATC
upper sequence: GRMZM2G018508_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 6
-----gtttgacgtctgtaaggtctttcctttttatatcctccggtgttgtttactgaaccgttgtagctctgactgaattatgcttgtaaaatgttgactcaagGGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATGAACTACATTGAGTGCATCAATGTAGATTTCAAATCAACAAGAAAGGAAT
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gtatggataaatctctgttag--ctatgtcttctcggttttcaagagtagctgggtacattatgtttact--ggtgggaatccttctgt---gcttttac---agGGAACTGCTGTCGAGGGCACAATCCAGCAACTGTTCGAAGGGCATCACATGAACTACATAGAGTGCATCAATGTTGATTATAAATCAACACGGAAAGAGT
upper sequence: GRMZM2G018508_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 3'ss of exon 6
gtttgacgtctgtaaggtct---ttcctttttatatcctccggtgttgtttactgaaccgt-tgtagctctgactgaattatgcttgtaaaatgttgactca-agGGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATGAACTACATTGAGTGCATCAATGTAGATTTCAAATCAACAAGAAAGGAAT
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-------gtatggaagaattagttctagtcttgttttcttttctttcctgagttgcgtcgtatgtgatcttaactttgttgtggttctcacctggcctttcgcagGGTACCGCTGTTGAGGGCACAATTCAACAACTGTTTGAAGGTCATCATATGAACTACATAGAGTGTATCAATGTTGACTACAAGTCAACACGCAAAGAGTMapped 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|50332270|gb|CO527396.1|CO527396EST: TTCAAGAATTGAACAGAGTTCTTTCTGAGAAGTTGGAAGATAAGATGAAG GGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATG
genomic: TTCAAGAATTGAACAGAGTTCTTTCTGAGAAGTTGGAAGATAAGATGAAGgtttgacgtc ... ttgactcaagGGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttactgaaccgttgtagctctgactgaattatgcttgtaaaatgttgactcaagGGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATGAACTACATTGAGTGCATCAATGTAGATTTCAAATCAACAAGAAAGGAAT
tgttgac putative branch site (score: 3)
ttgtaaaat 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
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gtttgacgtctgtaaggtctttcctttttatatcctccggtgttgtttactgaaccgttgtagctctgactgaattatgcttgtaaaatgttgactcaagGGAACTGTTGTAGAGGGCACAATACAACAATTGTTTGAAGGGCACCACATGAACTACATTGAGTGCATCAATGTAGATTTCAAATCAACAAGAAAGGAAT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA