Sequence
atgc intronic sequence ATGC exonic sequenceGGGCCCGCACCGCCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgttccttcatgtttctttgccttgccttgcctcgtctggagcatttcatcgaccatctggtgggcgtgtgctgataccctgcttttcttctgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G043109_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g17170.1 (Oryza sativa), 5'ss of exon 1
GGGCCCGCACCGCCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgttccttcatgtttctttgccttgccttgcctcgtctggagcatttcatcgaccatctggtgggcgtgtgctgataccctgcttttcttctgcag--------------
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GGGGCCTCTCAGGCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCGGAGTTCTCCGGGTTCCTCCTCTACAAGGAGCTCGGCCGCAGGCTCAAGgttcgtagttgcagtctagctt---cttgctttg-------catttcaccgagcacctggtgggcgcttgctaatgctcctttttttttctttttttttttttttgcag
upper sequence: GRMZM2G043109_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA19G30350.1 (Glycine max), 5'ss of exon 1
GGGCCCGCACCGCCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgt------tccttcatgtttctttgccttgccttgcc--tcgtctggagcatttcatcgaccatctggtgggcgtgtgctgataccctgcttttcttctgcag
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GGGGCCACTCAGGCAGATCTTTGTGGAGTTCCTTGAGAGGTCCTGCACTGCTGAATTCTCTGGCTTCCTTCTCTACAAAGAGCTTGGAAGGAGGCTCAAGgtatggtccctttcttttcttttgaatttgattcaacattcaaagggaaaattttaaaaataaataaataaattctatgcactgtccgaataaaattttt---
upper sequence: GRMZM2G043109_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT3G56940.2 (Arabidopsis thaliana), 5'ss of exon 2
GGGCCCGCACCGCCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgttccttcatgtttctttgccttgccttgcctcgtctggagcatttcatcg--accatctggtgggcgtg--tgctgataccctgcttttcttctgcag-
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AGGACCTCTCCGACAGATCTTCGTTGAGTTCCTTGAGCGGTCTTGTACTGCTGAGTTCTCTGGTTTCCTTCTCTACAAGGAGCTTGGTCGAAGACTCAAGgtgagaatttaagaatatatatggctttaagtaatagtcaagtctcaattgttatgagttttcaagtgtggttgttggtttgatgttccttgtctacgtt
upper sequence: GRMZM2G043109_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv08s0040g00390.t01 (Vitis vinifera), 5'ss of exon 1
GGGCCCGCACCGCCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgttccttcatgtttctttgccttgccttgcctcgtctggagcatttcatcgaccatctggtgggcgtgtgctgataccctgcttttcttctgcag------
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GGGTCCCCTCAGGCAGATCTTTGTGGAGTTCTTGGAGAGGTCTTGCACTGCTGAGTTCTCTGGGTTTCTTCTCTACAAGGAGCTTGGACGAAGGCTTAAGgtatggctttctttattc-cttcaattgatttctaatacagccatgctcctgggttttgttttttcaatgtttatgcctctatatgcagctgaattttcaa
upper sequence: GRMZM2G043109_T01 (Zea mays), 5'ss of exon 1
lower sequence: EDP04035 (Chlamydomonas reinhardtii), 5'ss of exon 4
GGGCCCGCACCGCCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgttccttcatgtttctttgccttgccttgcctcgtctggagcatttcatcgaccatctggtgggcgtgtgctgataccctgcttttcttctgcag---------------------------------
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--------------------------AGTTCCTGGAGCGCTCTTGCACCGCCGAGTTCAGCGGCTTCCTGCTGTACAAGGAGCTGGCGCGCCGCATGAAGGCCTCCAGCCCCGAGGTGGCCGAGATgtgagt-gattgcggcgtgcgagcgcgcggctggccggc-tgtgcggatgcgatcaatgccgtttgtacgagggtgggatttttgcgggttggcggggcgggMapped 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|148936321|gb|EC880405.2|EC880405EST: CTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAG AAAACTAACCCGGTCGTGGCGGAGATCTTCTCGCTCATGTCCAGGGACGAG
genomic: CTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgttccttcat ... tcttctgcagAAAACTAACCCGGTCGTGGCGGAGATCTTCTCGCTCATGTCCAGGGACGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGCCCGCACCGCCAGATCTTCGTCGAGTTCCTCGAGCGCTCCTGCACCGCTGAGTTCTCCGGCTTCCTCCTCTACAAGGAGCTCGGTCGCAGGCTCAAGgttccttcatgtttctttgccttgccttgcctcgtctggagcatttcatcgaccatctggtgggcgtgtgctgataccctgcttttcttctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT