Sequence
atgc intronic sequence ATGC exonic sequencegtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtataaattatttgatctcaaaacgtatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g06820.1 (Oryza sativa), 3'ss of exon 4
-----gtaagattacaattcaatggttgtttccaac--------tatcgatacttgttg-aatcctgatcat-gtggtcatgctatttaccttttggtgcttgtataaattatttgatctcaaaacg-tatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
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gtaaggcatagatctatctacgtattcttttgtaacagggtactttttgacagctactgcagatatgttgattatggatatgttctgtgttttctagttttacta-aaacaacttgttctaaaaataacttgcatgtgaacaaactacattattctcttcttgcagGGATAGAGACCGATATGTCCATGGAGATTACCGCTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTGAAGACCTGGGCTGAAAAGGAAATG
upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G46440.1 (Glycine max), 3'ss of exon 4
gtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtataaattatttgatctcaaaacgtatgcttgttaag--aaactgtgtcattttattattg-cagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
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--------------------------------------------taaatcctaat---gtatttctactac------tttgactggagaagaagtttcttgattcaaagttgtttgttttatgaactaaattatatgatcttattgatatcagGGATAGAGATAGATATGTGCAAGGAGACTTCCGATTTCGAAATGGATACTGCAAGCATAATCCCAGGAAAATGGTAAAAACATGGGCAGAGAAAGAAATG
upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 4
gtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtata---aattatttgatctcaaaacgtatgcttgttaag--aaactgtgtcattttattattg-cagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
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-------------------------------------------------------taaattgtaatg-tatttctactacattgactatagacgaagtttcttgattcaaagttgtttgttttatgaactaaattatatgatcttatcgatatcagGGATAGAGATAGATATGTGCAAGGAGACTTCCGGTTTCGAAATGGATACTGCAAGCATAATCCCAGGAAAATGGTAAAAACATGGGCTGAGAAAGAAATG
upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtataaattatttgatctcaaaacgtatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
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--------------------------------------------------------gtgagctattagtattacatgaatagaggttgt--taatgattttgttttagtccctatttttat-----aactgtg-------atgatttcagGGATCGAGATCGATATGTACAAGGAGATTACCGTTTTAGATATGGCTACTGTCGTCACAATCCTCGAAAGATGGTGAAGACATGGGCTGAAAAAGAACAG
upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtataaattatttgatctcaaaacgtatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
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--------------------------------------------------------------gtaagctatttacat--gaataatgttgtttatcagttcttctaaaactcttaacttaatcccagttttcaac-tttgatgatttcagGGATCGAGATCGATATGTACAAGGAGATTACCGTTTTAGATATGGCTACTGTCGTCACAATCCCCGGAAGATGGTGAAGACATGGGCTGAAAAAGAACAG
upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 4
gtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtataaattatttgatctcaaaacgtatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
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------------------------------------atatctcaatgatgctgatattgcaa--atgatttccatttttccaagagtatgtattctat---agcttataatgtg-attcgtct--------tgttttctaacaactccagGGATAGAGATCGGTATGTACAAGGAGACTACCGTTTCAGACATGGATACTGCAAGCACAATCCTAGGAAAATGGTAAAGACATGGGCTGAGAAAGAAATG
upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 4
lower sequence: PP1S191_78V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtataaattatttgatct-caaaacgtatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
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-------------------------------------------------ttcgtagatgttttttttcttctgtttgggtggt-ctgccacaaaggatgaaagcagcgtcacccttttttctcacggcatt-tgttactgggcctgaatagGGATCGAGAGAGATATGTGCAAGGAGATTTTAGATTTCGACATGGGTATAGCAAACACAATCCCCGAAAGATGGTCAAGACCTGGGCTGAGAAGGAGATGMapped 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|78115075|gb|DV533463.1|DV533463EST: GGCCAGGAGCTTGCAATTAA-GTCTACAAAACCTCTGTCCTTGTTTTTAA NGATAGAGACCGATATGTCC
genomic: GGCCAGGAGCTTGCAATTAAAGTCTACAAAACCTCTGTCCTTGTTTTTAAgtaagattac ... attattgcagGGATAGAGACCGATATGTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttgatctcaaaacgtatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
atttgat putative branch site (score: 5)
ttttatt putative PPT
tgtcattttattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagattacaattcaatggttgtttccaactatcgatacttgttgaatcctgatcatgtggtcatgctatttaccttttggtgcttgtataaattatttgatctcaaaacgtatgcttgttaagaaactgtgtcattttattattgcagGGATAGAGACCGATATGTCCAAGGAGATTATCGTTTTAGACATGGTTACTGCAAGCATAATCCTCGGAAAATGGTTAAGACCTGGGCTGAAAAGGAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA