Sequence
atgc intronic sequence ATGC exonic sequencegtaagctgatagctaattttgaaattttggctgttgattccagaatcgatgcatcaaaattttctcatgtaaactgaacttaaaacatatttctctacttaaaattattttgttcaccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGAATAAATTTGCCTCTTGCTTTCACTGGGCAAGAGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G443903_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g55730.1 (Oryza sativa), 3'ss of exon 3
gtaagctgatagctaattttgaaattttggctgttgattccagaatcgatgcatcaaaattttctcatgtaaactgaacttaaaacatatttctctacttaaaattattttgttcaccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGAATAAATTTGCCTCTTGCTTTCACTGGGCAAGAGTC
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------------------ttgaattttataccatgctaactttgagcaatttttctcagctgttactttttatggaaagtggaaatgattttct----taaagactacttt--tctcttataagATTCTTTTGCTTGGTGGGATTGGGAGCGCTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGTATCAATTTGCCTCTTGCTTTCACTGGTCAAGAAGC
upper sequence: GRMZM2G443903_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g07680.t01 (Vitis vinifera), 3'ss of exon 3
gtaagctgatagct---aattttgaaattttggctgttgattccagaatcga----tgcatcaaa-attttctcatgtaaa---ctgaacttaaaacatattt-------ctctacttaaaattattt---tgttcaccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGAATAAATTTGCCTCTTGCTTTCACTGGGCAAGAGTC
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gtgagcttctacctccaaatcgcctactatttcctaatctttgccaaacagaaatttatattatatattttggtgcctgaggcctcaaacttgaattatgctctgatggacactgtcttctctcctttatatgtgctttctgaagATACTTTTGCTTGGTGGGACTGGAAAAGATGGGAAAAGGAAATTGATTGGATGGCTCTCCAAGGCATCAATTTGCCTCTGGCATTTACGGGGCAAGAGGC
upper sequence: GRMZM2G443903_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S329_23V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaagctgatagctaattttgaaattttggctgttgattccagaatcgatgcatcaaaattttctcatgtaaactgaacttaaaacatatttctctacttaaaattattttgttcaccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGAATAAATTTGCCTCTTGCTTTCACTGGGCAAGAGTC
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------ttacagtgtactc---aattttatatgtgaaaatgagaa--gaccgaacaatgttgccttaaattatgtgc-ctcagaatctgactctttaacc------------ttcttactgtagATTCATATGTGTGGTGGACCTGGGAGCGATGGGAAAAAGAAATAGATTGGATGGCATTGCAAGGTATCAATTTGCCTCTTGCATTCACAGGGCAAGAGGCMapped 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|31358287|gb|CD442644.1|CD442644EST: TCAAAGACCCATTGACTGGAGCTACTACCAGAATGCAGTTACATCCAGCT ATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGA
genomic: TCAAAGACCCATTGACTGGAGCTACTACCAGAATGCAGTTACATCCAGCTgtaagctgat ... caccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGA
EST:
gi|18659611|gb|BM500428.1|BM500428EST: TCAAAGACCCATTGACTGGAGCTACTCCCAGAATGCAGTNACATCCAGCT ATTCTTTGGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGA
genomic: TCAAAGACCCATTGACTGGAGCTACTACCAGAATGCAGTTACATCCAGCTgtaagctgat ... caccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaactgaacttaaaacatatttctctacttaaaattattttgttcaccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGAATAAATTTGCCTCTTGCTTTCACTGGGCAAGAGTC
ttttgttcacccttt CT-rich tract
aacttaaaacatattt 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
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gtaagctgatagctaattttgaaattttggctgttgattccagaatcgatgcatcaaaattttctcatgtaaactgaacttaaaacatatttctctacttaaaattattttgttcaccctttagATTCTTTTGCTTGGTGGGATTGGGACCGTTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGAATAAATTTGCCTCTTGCTTTCACTGGGCAAGAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA