Sequence
atgc intronic sequence ATGC exonic sequence...agtgcattctctccctgtcgatccaaatatttcaagttctctctttgaaatttgcatcttgctccgtgttctaattatgctttgggaccttgtaatgtagGAAACCAGACTCACCAAAACCGTGGGCAAGACTTTACGAAGGGAAAGATAGCACTCCCACGAAGAAAAAGTGCTGCAACTGCAGGAACTCCAGATGTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104246_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g55580.2 (Oryza sativa), 3'ss of exon 1
agtgcattctctccctgtcgatccaaatatttcaagttctctctttgaaatttgcatcttgctccg---tgttctaattatgctttgggaccttgtaatgtagGAAACCAGACTCACCAAA---ACCGTGGGCAAGACTTTACGAAGGGAAAGATAGCACTCCCACGAAGAAAAAGTGCTGCAACTGCAGGAACTCCAGATGTTTG
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-acgatcttagttgatgcaaattccctatttctattttttctcttgttattttgcgtcatgttccaagatgttcttattgtgctttgaatc--tgtattgtagGAAACCAGAGTCACCAAAGCCACCACGGGCACGGCTTTATGAAGGGAAAGATGGCACCCCGACAAAGAAGAAGTGCTGCAACTGCAAGCACTCCAAATGT---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|87156420|gb|DY401209.1|DY401209EST: CGTCCGATGCCGCCACAGCCAGTCCAGCGTCCCCCGGTCGCCGTTCCCTT GAAACCAGACTCACCAAAACCGTGGGCAAGACTTTACGAAGGGAAAGATAG
genomic: CGTCCGATGCCGCCACAGCCAGTCCAGCGTCCCCCGGTCGCCGTTCCCTTgtgagtgccc ... tgtaatgtagGAAACCAGACTCACCAAAACCGTGGGCAAGACTTTACGAAGGGAAAGATAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaatttgcatcttgctccgtgttctaattatgctttgggaccttgtaatgtagGAAACCAGACTCACCAAAACCGTGGGCAAGACTTTACGAAGGGAAAGATAGCACTCCCACGAAGAAAAAGTGCTGCAACTGCAGGAACTCCAGATGTTTG
ttctaat putative branch site (score: 2)
ttctaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgcattctctccctgtcgatccaaatatttcaagttctctctttgaaatttgcatcttgctccgtgttctaattatgctttgggaccttgtaatgtagGAAACCAGACTCACCAAAACCGTGGGCAAGACTTTACGAAGGGAAAGATAGCACTCCCACGAAGAAAAAGTGCTGCAACTGCAGGAACTCCAGATGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- tgcattc
- - - - - ctccctg
- - - - - - - - - - - - - - - - - - - - - - - - -atttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgctt