Sequence
atgc intronic sequence ATGC exonic sequencegtacgtttttattaccgaaatcacaactcgagacttagccacaaaaaactttttttttcaatgtcagcaagctatgttgatgtagtgatgttttctgttgctatatttcaatgtaccagCTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGGATACGCTCAATGACTCAAAAGCCACATATATGTGCTACTTGGGGAGATACTGGTCATGTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G458888_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g03990.1 (Oryza sativa), 3'ss of exon 5
gtacgtttttattaccgaaatcacaactcgagacttagccacaaaaaactttttttttcaatgtcagcaagctatgttgatgtagtgatgttttctg-ttgctatatttcaatgtaccagCTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGGATACGCTCAATGACTCAAAAGCCACATATATGTGCTACTTGGGGAGATACTGGTCATGTTCAG
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gtaagttctttct-ccaagtgcacagctgtgaatttagctatgaattttacttgttttgcatcccagtttgctcatctgatacattactctaacatgctttgtatctgtttatgtac-agCTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGTATTCGCTCTATGAATCAGGAACCACATATATGTGCAACATGGGGAGACACAGGTCATGTTCAG
upper sequence: GRMZM2G458888_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g03822.1 (Oryza sativa), 3'ss of exon 5
gtacgtttttattaccgaaatcacaactcgagacttagccacaaaaaactttttttttcaatgtcagcaagctatgttgatgtagtgatgttttctgttgctatatttcaatgtac---cagCTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGGATACGCTCAATGACTCAAAAGCCACATATATGTGCTACTTGGGGAGATACTGGTCATGTTCAG
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gtaagttctttct-ccaagtgcacagctgtgaatttagctatgaattttacttgttttgcatcccagtttgctcatttgttacattactctaacatgct-ttgtgtctgtatgcatgtacagTTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGTATTCGCTCTATGAATCAGGAACCACATATATGTGCAACATGGGGAGACACAGGTCATGTTCAGMapped 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|33095104|gb|CF055098.1|CF055098EST: GTGATGAAGAAGATGAAGAAATTAACGAGGATACAAAGCCCATCCTACAT CTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGGATACGCTCAATGACT
genomic: GTGATGAAGAAGATGAAGAAATTAACGAGGATACAAAGCCCATCCTACATgtacgttttt ... aatgtaccagCTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGGATACGCTCAATGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagcaagctatgttgatgtagtgatgttttctgttgctatatttcaatgtaccagCTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGGATACGCTCAATGACTCAAAAGCCACATATATGTGCTACTTGGGGAGATACTGGTCATGTTCAG
tgttgat putative branch site (score: 4)
tatatttcaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtttttattaccgaaatcacaactcgagacttagccacaaaaaactttttttttcaatgtcagcaagctatgttgatgtagtgatgttttctgttgctatatttcaatgtaccagCTAAAAAAGGTGGCTCATGCGGGGTGTGTAAATCGGATACGCTCAATGACTCAAAAGCCACATATATGTGCTACTTGGGGAGATACTGGTCATGTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT