Sequence
atgc intronic sequence ATGC exonic sequenceATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgttacatattttctctacatcaccttgttgaattggtgggtcttgcttttgactgcaatacattaccgattgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 5'ss of exon 5
ATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgttacatattttctctacatcacct--tgttgaattggtgggtcttgcttttgactgcaatacattaccgattgcag----------
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ATATATTGTATGACTCGTGGTCACCGGCGATGACCGTTAGTTCTGTTTGTATCAGTATCTTGTCCATGTTGTCAAGCTCACCAGCAAAGgttatagagcttcactgtgtcctctcctgtttaaatgg-agatcatgcatctgaccatattatat-gtttattatatgttggtgcag
upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA01G37480.1 (Glycine max), 5'ss of exon 5
ATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgttacatattttctctacatcaccttgttgaattggtgggtcttgcttttgactgcaatac-attaccg-attgcag--------------------------
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ATATATTGTATGATTCATGGTCCCCTGCGATGACAGTTAGTTCTATCTGCATCAGTATTCTCTCAATGCTTTCAAGCTCAACCACAAAGgtgaga-atttattaaccatgaatcttgtattttcctaattcct--tttgtgctatgataagattactggaccatataggacatgctatatttttaaccaagg
upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 6
lower sequence: AT1G75440.1 (Arabidopsis thaliana), 5'ss of exon 5
ATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgt---tacatatttt---ctctacatcaccttgttgaattggtgggtcttgcttttga--ctgcaatacattaccgattgcag-------------
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ATATTTTGTATGATTCGTGGTCTCCAGCCATGACGGTGAGTTCTATCTGCATTAGCATCCTCTCCATGCTCTCAAGCTCGACTGAAAAGgtacttacagctcttacactcaccattaatatataaactttgatctctttgttgctgaagctgaaccttcgtctcgcttggcttgttttgttgcag
upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 6
lower sequence: Vv18s0001g13180.t01 (Vitis vinifera), 5'ss of exon 5
ATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgtta----catattttctctacatcaccttgttgaa-----ttggtgggtcttgcttttgactgcaatacatt---accgattgcag-------------------------------------
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ATATTCTATATGATTCATGGTCCCCAGCCATGACAGTTAGTTCAATCTGTATCAGCATACTCTCCATGTTATCGAGCTCAACTGTGAAGgtttggttcaaattgtcaaagttttaagttttttaaacccctcctttcttcttaattttgcttttatctttttccagcctattttagtgtgagagcattactcatgagttttttcattgtgcag
upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 6
lower sequence: Vv04s0023g02620.t01 (Vitis vinifera), 5'ss of exon 5
ATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgtt---acatattttctctac-atcaccttgttgaattggtgggt-----------cttgcttttgactgcaatacattaccgattgcag----------
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ATATTTTGTATGATTCTTGGTCCCCAGCCATGACAGTTAGTTCTATCTGCATCAGCATTCTCTCCATGCTATCAAGCTCAACTGTGAAGgttcttgtccatctttcttactagcactttcatatccttctcggttcacaattcaacttggttttccttgtgctatgattcaattctctggggcaaagct
upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 6
lower sequence: PP1S211_21V6.1 (Physcomitrella patens), 5'ss of exon 5
ATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgt--tacatattttctctacatcacctt------gttgaattggtgg-gtcttgcttttgactgcaatacattaccgattgcag----------------
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ATATTCTTTATGACTCTTGGTCACCAGCAATGACCGTGAGTTCTATCTGCATCAGCATCCTGTCCATGTTGTCTAGTTCAACTGTGAAGgtactttttaaagtttccacactagcctccacgtattgaattttcagtatatcgcatgtaaaaatggggactgttcttttagtgtcctgctttctaacttMapped 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|88749741|gb|DY533882.1|DY533882EST: GTTCTATCTGTATCAGCATATTATTTATGCTGTCCAGCTCGCCAGAAAAG CAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGG
genomic: GTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgttacatatt ... ccgattgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATACTGTATGACTCGTGGTCCCCAGCGATGACTGTCAGTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgttacatattttctctacatcaccttgttgaattggtgggtcttgcttttgactgcaatacattaccgattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC