Sequence
atgc intronic sequence ATGC exonic sequence...tcctctgtgctgattttcctggttggttagagcagattgtatgttgtggttggaaaggatgaagtgcatgtgctgattcatactggtgattggttggcagGCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCAAGGCTGGAAGGGCGGTACCCCATGCGCGGGCTGTACCAAGCCCTGGCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G137468_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g30900.1 (Oryza sativa), 3'ss of exon 4
------tcctctgtg-ctgattttcctggttggttagagcagattgtatgttgtggttggaaaggatgaagtgcatgtgctgattcatactggtgattggttggcagGCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCAAGGCTGGAAGGGCGGTACCCCATGCGCGGGCTGTACCAAGCCCTGGCGG
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atcatgtattgtgaggctaaatgtttttttttttttgggggg---gtgagaagaggct---aatgacttgacccatgtactcaca-atatttcatattaactgccagGCACGACCTCTTTTCAACGACAGAAGAAAGCTCCCAAAAATGGCTGACCCAAGACTGGAGGGACGATACCCCATGCGTGGACTTTACCAAGCACTTGCAG
upper sequence: GRMZM2G137468_T01 (Zea mays), 3'ss of exon 4
lower sequence: PP1S116_115V6.1 (Physcomitrella patens), 3'ss of exon 5
tcctctgtgctgattttcctggttggttagagcagattgtatgttgtggttggaaaggatgaagtgcatgtgctgattcatactggtgattggttg-gcagGCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCAAGGCTGGAAGGGCGGTACCCCATGCGCGGGCTGTACCAAGCCCTGGCGG
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gggagagtggagtgaatgagggatgatatggagttcgtgcatggcgtgtgatgaagtgaagaacttgacaggccggtggat-tgggggcttggtggtgcagGCTCGGCCGCTGTTCAAGGACAGAAGGAAGTTTCCGTCGATGGCAGATCCGATGCTGCAGGGGCGGTATCCAATGCGCGGGCTGTACCAAGCTCTGGCGG
upper sequence: GRMZM2G137468_T01 (Zea mays), 3'ss of exon 4
lower sequence: PP1S116_107V6.1 (Physcomitrella patens), 3'ss of exon 4
tcctctgtgctgattttcctggttggttagagcagattgtatgttgtg-gttggaaaggatgaagtgcatgtgctgattcatactggtgattggttg-gcagGCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCAAGGCTGGAAGGGCGGTACCCCATGCGCGGGCTGTACCAAGCCCTGGCGG
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agaggagtggggttattcaggaatgatatgcagtgtgtgaataccgtgtgatggagtggagtacgtg-acaggccggtggat-tgggggcttggtggtgcagGCCCGGCCGCTGTTCAAGGACCGAAGGAAGTTTCCGTCGATGGCGGATCCGATGCTGCAGGGGCGGTATCCAATGCGCGGGCTGTACCAAGCCCTGGCAGMapped 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|87156740|gb|DY401529.1|DY401529EST: GGGCTATCGACAGCACCAGACCACATGGAGAACAAAATCTTGTCTCATGG GCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCA
genomic: GGGCTATCGACAGCACCAGACCACATGGAGAACAAAATCTTGTCTCATGGgtaagtgatg ... tggttggcagGCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggttggaaaggatgaagtgcatgtgctgattcatactggtgattggttggcagGCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCAAGGCTGGAAGGGCGGTACCCCATGCGCGGGCTGTACCAAGCCCTGGCGG
tgctgat putative branch site (score: 3)
attcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctctgtgctgattttcctggttggttagagcagattgtatgttgtggttggaaaggatgaagtgcatgtgctgattcatactggtgattggttggcagGCACGTCCTCTTTTCAACGACAGAAGGAAGCTCCCCAAGATGGCCGACCCAAGGCTGGAAGGGCGGTACCCCATGCGCGGGCTGTACCAAGCCCTGGCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG