Sequence
atgc intronic sequence ATGC exonic sequence...gcctattgggtgttaatgtagcaaagaatcattagttttcgaggttatcctgtggtactgctggtggtgattgatgttgcttctcttggctgtggtgcagGTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGCATCGCTCCTGCCTTGACCACTGGAGGTCTGTTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G034536_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g42500.1 (Oryza sativa), 3'ss of exon 1
-gcctattgggtgttaatgtagcaaagaatcat-tagttttcgaggttatcctgtggtactgctggtgg--tgattgatgttgcttctcttggctgtggtgcagGTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGCATCGCTCCTGCCTTGACCACTGGAGGTCTGTTAAG
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ttgatcctgagaatgcatacgaggagaaatctcctagggtttgatacggtgcggtgcggggcctgtttaactgatcggtgttgctcgtgt--gctgc--ttcagGTGATGAGCTGATTTCTCCTTGTATGTGCAAAGGGACGCAGCAGTTCGTGCATCGCTACTGCCTTGATCATTGGAGGTCTGTTAAG
upper sequence: GRMZM2G034536_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ26224 (Selaginella moellendorffii), 3'ss of exon 1
gcctattgggtgttaatgtagcaaagaatcattagttttcgaggttatcctgtggtactgctggtggtgattgat--gttgcttctcttggctgtggtgcagGTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGCATCGCTCCTGCCTTGACCACTGGAGGTCTGTTAAG
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--------------------gtaagtctttgctagaatcgatctttcttccgtgctaagtaagaaaattcttctttggttttttacccttgatgcgttccagGCGATGAATTGATCTCTCCTTGTATGTGCAAGGGGACTCAACAGTTCGTCCATCGATCATGCCTCGATCACTGGCGCTCGGTCAAG
upper sequence: GRMZM2G034536_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ14522 (Selaginella moellendorffii), 3'ss of exon 1
gcctattgggtgttaatgtagcaaagaatcattagttttcgaggttatcctgtggtactgctggtggtgattgat--gttgcttctcttggctgtggtgcagGTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGCATCGCTCCTGCCTTGACCACTGGAGGTCTGTTAAG
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--------------------gtaagtctttgctagaatcgatctttcttccgtgctaagtaagaaaattcttctttggttttttccccttggtgcgttccagGCGATGAATTGATCTCTCCTTGTATGTGCAAGGGGACTCAACAGTTCGTCCATCGATCATGCCTCGATCACTGGCGCTCGGTCAAGMapped 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|101385086|gb|EB814588.1|EB814588EST: CGCCTCCGCCGCCTGCTGCCGCATCTGCCTCGAATCCGAGTCCGAGCCTG GTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGC
genomic: CGCCTCCGCCGCCTGCTGCCGCATCTGCCTCGAATCCGAGTCCGAGCCTGgtgagccccc ... tgtggtgcagGTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcctgtggtactgctggtggtgattgatgttgcttctcttggctgtggtgcagGTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGCATCGCTCCTGCCTTGACCACTGGAGGTCTGTTAAG
gattgat putative branch site (score: 4)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcctattgggtgttaatgtagcaaagaatcattagttttcgaggttatcctgtggtactgctggtggtgattgatgttgcttctcttggctgtggtgcagGTGATGTGCTAATATCTCCATGTATGTGCAAGGGGACACAGCAGTTCGTGCATCGCTCCTGCCTTGACCACTGGAGGTCTGTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG