Sequence
atgc intronic sequence ATGC exonic sequencegttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgtaagcatattgctaggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCTCAGTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g33450.2 (Oryza sativa), 3'ss of exon 5
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgtaagcatattgctaggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCTCAGTCG
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-----------------------------------------------------gttggtatcctttcggtttttttttaagttt-ttacaaataaatctt--tcaagcatagcttaatgact-tgttaaccgtccttttctttacttgtgtgtatcagACAACCTATGAGAACTTTAGGTATCGGTACGATCGGCGGGCTAACCCATATAACAGAGGTATGGTGAACAACTTTCTGGAGATCTTCTGCACTGCAATTC
upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgta-agcatattgctaggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCT-CAGTCG
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---------------------------------------------------gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacagga-cttgcaactttatatttg---tgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC-
upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G27160.1 (Glycine max), 3'ss of exon 4
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgtaagcata-ttgctaggaatttgtaattactctc-atgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCT-CAGTCG
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----------------------------------------------------------------------------gtaagcacagttctttttaatccgcatgctctagctgttcagatgtatatggcttcatatttgctccattatt----cttgcagACTACATATGAAAACTTCAGATACCGATATGATCGGCGAGCCAACCCATATAATGAAGGAGTGTTGAATAATTTCAAAGAGATATTCTGCATCAGCATTC-
upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 4
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgtaagca-tattgctaggaatttgtaattactctcatgtggga-gcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCTCAGTCG
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----------------------------------------------------------------------------gtaagccctgttcgttttaatccacatgctctagcttttcagatgtatacagcttcatatttgctccattatt----cttgcagACTACATATGAAAACTTCAGATACCGATATGATCGGCGAGCCAATCCATATAATAAAGGAGTGTTGAATAATTTCAAAGAGATATTCTGCATCAGCATTT
upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagca-tattgctgataattggttagtttactcgtaagcatattgctaggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCT-CAGTCG
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------------------------------------------gtaatcagtcctttttaaaatc------tttatatagtagtataat-ttaaaattaagtatctatcctactg----gacttgcaactttatatttg---tgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC-
upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgtaagcatattgcta-----ggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCTCAGTCG
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---------------------------------------------------------gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaatttt-ccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTTMapped 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|60342809|gb|DN209782.1|DN209782EST: TTGTGGGTGGTCTGTCTGTCTTCCATTTCTATCTCATGAGCACTAACCAG ACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTAC
genomic: TTGTGGGTGGTCTGTCTGTCTTCCATTTCTATCTCATGAGCACTAACCAGgttggtaccc ... tcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTAC
EST:
gi|211248421|gb|FL442236.1|FL442236EST: TCTATCTCATGAGCACTAACCAG ACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTAC
genomic: TCTATCTCATGAGCACTAACCAGgttggtaccc ... tcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCTCAGTCG
tctgcccttttcctat CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgtaagcatattgctaggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCTCAGTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT