Sequence
atgc intronic sequence ATGC exonic sequencegtccgggaccaaggagttcatggaagcccttgctgctggcgctgatgtgtctatgattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAGGGTCGTCGTGACCACCAAGCATAACGATGACGAGCAGTACGTGTGGGAATCCCAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G069651_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ22362 (Selaginella moellendorffii), 3'ss of exon 2
-------------gtccgggaccaaggagttc---atggaagcccttgctgctgg-cgctgatgtgtct-atgattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACC-TCGTC------GCCGAGAGGGTCGTCGTGACCACCAAGCATAACGATGACGAGCAGTACGTG--TGGGAATCCCAGG
| | || ||| | | | || || || | | | || || | ||| ||| | | ||| | | |||| |||| ||| | | | || || || || | | | || | ||| || || ||| | |
gtgagtttgagattctagaaattccagatttctagactaagatcttttcttctagatttttgtctgactcgagcttgttttgttagATCTCG-TGAACAATCTGGGTACCATCGCCCGGTCTGGCACGAAGGAGTTCATGGAGGCTCTGGCTGCCGGCGCCGATGTGTCGATGATTGGTCAGTTTGG-
upper sequence: GRMZM2G069651_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ29061 (Selaginella moellendorffii), 3'ss of exon 2
------gtccgggaccaaggagttcatgg---aagcccttgctgctggcgctgatgtgtctatgattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAGGGTCGTCGTGACCACCAAGCATAACGATGACGAGCAGTACGTGTGGGAATCCCAGG
|| | | || ||| | | || ||| || | ||| || | ||| | | |||| |||| | | || || | || | | || | || || | | | | || | |
gtaagtttctagcttccagttcttcctagccggagttcttacttgta-tgctcattctttctagATCTCGTGAA-CAACCTCGGCACAA---TTGCCAGGTCTGGCACCAAGGAGTTCATGGAAGCCTTGGCCGCTGGCGCCGATGTGTC-CATGATCGGTCAGTTTGG-
upper sequence: GRMZM2G069651_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ17594 (Selaginella moellendorffii), 3'ss of exon 2
------gtccgggaccaaggagttcatgg---aagcccttgctgctggcgctgatgtgtctatgattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAGGGTCGTCGTGACCACCAAGCATAACGATGACGAGCAGTACGTGTGGGAATCCCAGG
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gtaagtttctagcttccagttcttcctagccggagttcttacttgtatgctcattctctctagATCTCGTGAA--CAACCTCGGCACAA---TTGCCAGGTCTGGCACCAAGGAGTTCATGGAAGCCTTGGCCGCTGGCGCCGATGTGTC-CATGATCGGTCAGTTTGG-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|211408945|gb|FK972015.1|FK972015EST: ATCGGCATGACCAAGTCCGACCTTGTCAACAACCTCGGTACCATCGCCAG TTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAG
genomic: ATCGGCATGACCAAGTCCGACCTTGTCAACAACCTCGGTACCATCGCCAGgtccgggacc ... gattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAG
EST:
gi|211406934|gb|FK994254.1|FK994254EST: ATCGGCATGACCAAGTCCGACCTTGTCAACAACCTCGGTACCATCGCCAG TTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAGGGTCGTCGTG
genomic: ATCGGCATGACCAAGTCCGACCTTGTCAACAACCTCGGTACCATCGCCAGgtccgggacc ... gattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAGGGTCGTCGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaggagttcatggaagcccttgctgctggcgctgatgtgtctatgattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAGGGTCGTCGTGACCACCAAGCATAACGATGACGAGCAGTACGTGTGGGAATCCCAGG
cgctgat putative branch site (score: 4)
tatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccgggaccaaggagttcatggaagcccttgctgctggcgctgatgtgtctatgattgggcagTTCGGTGTCGGTTTCTACTCTGCCTACCTCGTCGCCGAGAGGGTCGTCGTGACCACCAAGCATAACGATGACGAGCAGTACGTGTGGGAATCCCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -CGTCGCCG