Sequence
atgc intronic sequence ATGC exonic sequence...gacaacaatattgtgccatttgcacagacaaagataaaagtatctgatctatatgccacagatatgtttctcagtttgttgatatttttgaaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGTATCTCATGTATGAGAAAAAACAAGGAAAGGATTCATTTTGGTACCCCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G047695_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g13460.1 (Oryza sativa), 3'ss of exon 2
---gacaacaatattgtgccatttgcacagacaaagataaaagtatctgatctatatgccacagatatgtt-tctcagtttgttgatatttttgaaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGTATCTCATGTATGAGAAAAAACAAGGAAAGGATTCATTTTGGTACCCCTA
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caccaaaagaagaatatggaaattgatatgtcctt--ttcatgtatggtatttgttt-tcatttttgtactatggtaaccagctgatatttt-gaaccatacagCTGAATTGCTAACAACAAACAAATTATCTGAGCTGGCATGCTTGGCTTTGTATCTCATGTATGAGAAAAAGCAAGGACAAGATTCATTTTGGTATCCTTA
upper sequence: GRMZM2G047695_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G22520.2 (Glycine max), 3'ss of exon 2
gacaacaatattgtgccatttgcacagacaaagataaaagtatctgatctat-atgccacagatatgtttctcagtttgttgatatttttgaaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGTATCTCATGTATGAGAAAAAACAAGGAAAGGATTCATTTTGGTACCCCTA
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-gtcactgtgctgtgtaataaaagctagctgtattatggattgtaggtgtattgaagcgttgaaattttaatttatactttgttcgttatccttatttcagCTGAGCTATTGACTACAAATAAATTGTCCGAATTGGCGTGCTTGGCATTGTATCTGATGTATGAGAAAAAGCAGGGGAAGAAATCTTTCTGGTATCCGTA
upper sequence: GRMZM2G047695_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G07100.1 (Glycine max), 3'ss of exon 2
gacaacaatattgtgccatttgcacagacaaagataaa--agtatctgatctatatgccacagatatgtttctcagtttgttgatatttttgaaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGTATCTCATGTATGAGAAAAAACAAGGAAAGGATTCATTTTGGTACCCCTA
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--tgctgttctggtgtaattaaagctaggtattatggattggaggtgtattgaagcgtttttgaaattttaatttacactttgttcgttatccttattgcagCTGAGTTATTGACTACTAATAAATTGTCCGAATTGGCGTGCTTGGCATTGTATCTGATGTATGAGAAAAAACAGGGGAAGAAGTCTTTCTGGTATCCGTA
upper sequence: GRMZM2G047695_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 2
-------gacaacaatattgtgccatttgcacagacaaagataaaagtatctgatctatatgccacagatatgtttctcagtttgttgatatttttgaaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGTATCTCATGTATGAGAAAAAACAAGGAAAGGATTCATTTTGGTACCCCTA
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ttgttgtgatgacattcttttaggaccttaatcttctaggactaatgaaa--acttgatttggcctgtataacttgaattgcatgtttg-attctt----cacgcagCGGAACTATTAACCACAAACAAACTCTCGGAATTGGCCTGCTTGGCATTGTATTTAATGTATGAGAAGAAGCAAGGAAAGAAGTCTTTTTGGTACCCATAMapped 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|71437981|gb|DR819031.1|DR819031EST: AATGTCCCTCGTCGTTACGCTTGAGCGGGTGCTCGGAGATGAATCAATCG CTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGT
genomic: AATGTCCCTCGTCGTTACGCTTGAGCGGGTGCTCGGGGATGAATCAATCGgtgagatagc ... aaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatctatatgccacagatatgtttctcagtttgttgatatttttgaaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGTATCTCATGTATGAGAAAAAACAAGGAAAGGATTCATTTTGGTACCCCTA
tgttgat putative branch site (score: 4)
tttgttgatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacaacaatattgtgccatttgcacagacaaagataaaagtatctgatctatatgccacagatatgtttctcagtttgttgatatttttgaaccatgcagCTGAGTTGTTAACAAATAACAAGTTATCTGAGCTGGCATGCTTGGCATTGTATCTCATGTATGAGAAAAAACAAGGAAAGGATTCATTTTGGTACCCCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- caacaat
- - - - - - - - catttgc
- - - - - - - - - - - - -agacaaa
- - - - - - - - - - - - - - - - gataaaag
- - - - - - - - - - - - - - - - - - - - - - - - - -tatgcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgat