Sequence
atgc intronic sequence ATGC exonic sequencegtatcacctgtatctactgtattttatctttcctaacatcatggtctgtcgagtaatgcacgcttatgctggtacattgtttagagaaacatgcacttatatttcaatatgattattacttattagagaacttctcacagagtactgacacaatcttattctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTTAGCATGAATGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G101791_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g35630.1 (Oryza sativa), 3'ss of exon 11
gtatcacctgtatctactgtattttatctttcctaacatcatggtctgtcgagtaatgcacgcttatgctggtacattgtttagagaaacatgcacttatatttcaatatgattattacttattagagaacttctcacagagtactgacacaatcttattctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTTAGCATGAATGAT
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gtaatccaatcatgtactgtttttc----tacctagcatcat---cttgtgatttattta---------tgatatcttaccatgataaa---gcttatagaatgctgtaagat----atttat---agattttaccatggagcactgatacaatcatgttctgttagGTTCTCATGGAGCCAAAAAATGCTCTGGGTAAACAATTCAAGAAATTATTCAGCATGAATAAT
upper sequence: GRMZM2G101791_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 12
gtatcacctgtatctactgtattttatctttcctaacatcatggtctgtcgagtaatgcacgcttatgctggtacattgtttagagaaacatgcacttatatttcaatatgattattacttattagagaacttctcacagagtactgacacaatcttattctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTTAGCATGAATGAT
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-------------------------------------------------catgtgaaata--ctaattttggc----tgtttgaagagtcata-gtttttact----tattttagatcttgaacagatatatagtcatata--actgttg-----ttggttttgtagGTCCTCACTGAACCAAAAAATGCTCTTGGCAAGCAGTACAAGAAATTATTTAGCATGAACAAT
upper sequence: GRMZM2G101791_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA09G28260.1 (Glycine max), 3'ss of exon 12
gtatcacctgtatctactgtattttatctttcctaacatcatggtctgtcgagtaatgcacgcttatgctggtacattgtttagagaa-acatgcacttatatttcaatatgattattacttattagagaacttctcacagagtactgacacaatcttattctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTTAGCATGAATGAT
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--------------------------------------------------------ggaatacttaattttg---gctgttcgaagaatagttatagtttttacttaatttagatcctg---aacagatatatagtcatata--actgttgt----tggtttttgcagGTCCTCACTGAACCAAAAAATGCTCTTGGCAAGCAGTACAAGAAATTATTTAGCATGAACAAT
upper sequence: GRMZM2G101791_T01 (Zea mays), 3'ss of exon 11
lower sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 11
gtatcacctgtatctactgtattttatctttcctaacatcatggtctgtcgagtaatgcacgcttatgctggtacattgtttagagaaacatgcacttatatttcaatatgattattacttattagagaacttctcacagagtactgacacaatcttattctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTTAGCATGAATGAT
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---------------------------------------------------------gaaacttgaaactagaat----tttcaatattcttaattttatact---gtatcctcttcatttgtgaagtagcttatgtacttgctttggtttcattttgt---aacagGTTCTCACAGAACCAAAAAATGCTCTTGGTAAGCAGTACAAGAAATTGTTTAGCATGAACAATMapped 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|211127807|gb|FL448898.1|FL448898EST: TCCCTATCCTTGTGAGCCTCACCGCTCTAAATGAGGACCAGCTTGTTCAG GTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTT
genomic: TCCCTATCCTTGTGAGCCTCACCGCTCTAAATGAGGACCAGCTTGTTCAGgtatcacctg ... attctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattacttattagagaacttctcacagagtactgacacaatcttattctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTTAGCATGAATGAT
tactgac putative branch site (score: 1)
tcttattct putative PPT
aatcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcacctgtatctactgtattttatctttcctaacatcatggtctgtcgagtaatgcacgcttatgctggtacattgtttagagaaacatgcacttatatttcaatatgattattacttattagagaacttctcacagagtactgacacaatcttattctgctagGTTCTCACTGAGCCAAAGAATGCCCTGGGTAAGCAATTCAAGAAATTGTTTAGCATGAATGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA