Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatattttgttagttatgttgcttacactgtatatttgcatttgttctagttgttttgtttatttcattggttgtatctgactgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 8
gtatgtatattttgttagttatgt-tgcttacactgtatat----ttgcatttgttctagttgttttgtttatttcattggttgtatctgac----tgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
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gtatgtat---ttgataattatatatatacacacttctcaccttattactagagcactagttgtatttcttagttttggggtggtttcaaataagtttacatgcagGCATTACCAGAAGATCTCAAGACAAAGCTCAGCATTGATGATGAGCTGGTTTCAAGTCCAAAAGAGGCCCTTTCTCGGGTTTCTGCTGATAAGAGAAACA
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 8
gtatgtatattttgttagttatgttgcttacactgtatatttgcatttgttc---tagttgttttgtttatttcattggttg-tatctgactgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
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----------------------------------gtatgactgcttcccatcagctaatatgttttcctgtgtcatcattttctgtctaactgttccacagGCCCTACCAGATGATTTGAAGACAAAGCTCAGCCTAGATGAGGATTTGGTGTCAAGCCCTAAAGAAGCACTATCTAGAGCCTCTGCCGACAGAGTTGCCA
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 7
gtatgtatattttgttagttatgttgcttacactgtatatttgcatttgttctagttgttttgtttatttcattggttgt-atctgactgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
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------------------gtatgatgctt-caaagtgactgtgtaaccgt-----gtattttctgcatgtggacaatcctgatacaatcaatacacagGCGTTACCAGATGATTTGAAGACAAAGCTCAGTATTGATGATGATTTGGCTTCAAGCCCTAAAGAAGCACTATCCCGGGCCTCTGCAGATAGGAGAATGAMapped 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|32934348|gb|CF039160.1|CF039160EST: GCACATATATTGAACAAATTCAGCTGGAGAAATTGATTAATGATGTTATG GCGTTACCAGAAGATTTGAAGGCAAAGCTCAGCATCGACGATGAGCTGGTC
genomic: GCACATATATTGAACAAATTCAGCTGGAGAAATTGATTAATGATGTTATGgtatgtatat ... tgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatttgttctagttgttttgtttatttcattggttgtatctgactgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
atctgac putative branch site (score: 3)
ttttgtttatttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatattttgttagttatgttgcttacactgtatatttgcatttgttctagttgttttgtttatttcattggttgtatctgactgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA