Sequence
atgc intronic sequence ATGC exonic sequence...ccaaggaattcctatttcatcaagagaaaataaactagtttctcttagtaggcaattgtttgtcagtacaaaaactaacagcattttctgcctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G031721_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g43420.1 (Oryza sativa), 3'ss of exon 1
ccaaggaattcctatttcat-caagagaaaataaactagtttct----cttagtaggca-attgtttgtcagtacaaaaactaaca--gcattttctgc-ctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAG
|| || || | | | |||| | | ||| | ||| || | | | || ||| || | ||| | | ||| || ||||||||||| ||| | ||||| |||| || || ||||| ||||||||||||| |||||| ||||| ||||||||||| |||||||| ||||||||||||
---------tctgatcacacgcgacggcaaattggcaatgctctgcaccgtagcagttacaagactaatcggtagaatacataattttgagccctttgcactaacgcagGAAGCATTGGAAAAGCTGGGTTACTATTCGGGCGAAGAAGACATGGAGTTCTCCAGCTTCTCATCTGGCACCGAACGAGCTGTGAAGACATGGCAG
upper sequence: GRMZM2G031721_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G33590.1 (Glycine max), 3'ss of exon 1
ccaaggaattcctatttcatcaagagaaaataaactagtttctcttagtaggcaattgtttgt--cagtacaaaaactaacagcattttctgcc--tgacg---cagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAG
| ||| | | || || | ||| | | | | | | ||| || | || || || || | || ||| |||||||| ||| ||| | || |||||||| |||||||||||||||||||| ||||| ||||| ||| || ||||| ||||| ||||| |||||
-------ttaattatctactagtacgaggattggtttgttgcaatctgcacgtggataattggtgcaatgtggaatcttacttgatgtgttgaaaatgaaataacagGAAGCATTGTTGAAATTGGGGTTTTACTCTGGCGAGGAAGACATGGAGTATTCCAGCTTCTCAAGTGGAACTGAGCGTGCTGTGAAGACTTGGCAA
upper sequence: GRMZM2G031721_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G34000.1 (Glycine max), 3'ss of exon 2
ccaaggaattcctatttcatcaaga-gaaaataaactagtttctcttagtaggcaattgtttgtcagtacaaaaa-ctaacagcattttctgcctgacg--cagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAG
| || | | | | | ||| || | ||| | | | | | | ||| | ||| || || | || | |||||||| ||| ||| | || |||||||| |||||||||||||||||||| ||||| ||||| ||| |||||||| ||||| ||||| |||||
----gaccttaattatctactagtacgaagatttgtttgttgcaatctgcacgtggataattggtgccatgtaaatcttacttggtgcattgttgaaatatcagGAAGCATTGTTGAAATTGGGGTTTTACTCTGGCGAGGAAGACATGGAGTATTCCAGCTTCTCAAGTGGAACCGAGCGTGCTGTGAAGACTTGGCAAMapped 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|149080034|gb|EE169054.2|EE169054EST: GGAGGACGCTGAGGACGGGGGCCGAGGGCGAGGACGTGCGCGCGATGCAG GAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTAC
genomic: GGAGGACGCTGAGGACGGGGGCCGAGGGCGAGGACGTGCGCGCGATGCAGgtgatgtgag ... cctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtaggcaattgtttgtcagtacaaaaactaacagcattttctgcctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAG
ttttctgcct CT-rich tract
aaaaactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaaggaattcctatttcatcaagagaaaataaactagtttctcttagtaggcaattgtttgtcagtacaaaaactaacagcattttctgcctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAG
- - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaaaa