Sequence
atgc intronic sequence ATGC exonic sequencegtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 27
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
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-------------caattgaagtga---aacaagcaagctcacctgattttttttattatttaggcataatct-gta-ttgcattctgatgagtaa---catctataattgtgtattgcagGGAAAGAAAGAATGCTTTGCTTCTTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 27
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
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--------------aattgaagtga---aacaagcaagctcacctgattttttattattatttaggcataatctgta-ttgcattctgatgagtaa---catctataattgtgtattgcagGGAAAGAAAGAATGCTTTGCTTCTTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 27
---------------------------------------------------------------gtttggttcgaacccattg---tattggctgatgatatggg-------agtagctaattcaatactatata-cagcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaat-gtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
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gtgtttattttcttgtccttttccttaagatctcaaactctggtattcgtaaattagatactaactaggttagacccttttggcatagtgcactttgaccctgcttcacttagaaatgattttgctgctttctttcctcacctcccgcaccagtttttctctcttaattaacaaagg-gattatattgatttgcagGGAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTATGATATTATATGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 27
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttat-gcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
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------cacctcacctttgttttctttg-tgcttcgttggtc-ttaatttttaatttta---actaagtagttaattagttatgttcatattattccttgtatctttcca-----------gGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 25
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatac-agcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
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---tgcttcacctcacctttgttttctt-tgtcatgcttctt-tggtcttaattttaaattttaacaaaggagttatgttaatattattccctgta-----------tctt------tccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 27
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttatgcttgc-attctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
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---------------ttaatgtgggc--atggttc--taatatctttttgttgaatttctgtggtatggtgcttatttttattattttaagtctaatttatattgatgtacttt---tgcagGGAAAGAAAGAATGCTTTGCATCTTGCCTCTTTGTGTGCTACGACTTAATTCGTCCAGACATTGCTCTTGAACTTGCCTGGATTAACAATATGGTTGACT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 27
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
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-tctattttca--cctttcttccagcccacatgctagatgtgtttgataaatctttttaaacccttgagaagt-gtgttcattttctgctta----------------acgtgta-tgcagAAAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTACGATTTAATTCGGCCAGACGTTGTCCTTGAGCTTGCATGGATGAACAATATGATCGACTMapped 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|160481599|gb|EY254431.1|EY254431EST: CTGGCGACCGTGAACTGTCAGAGGACTTGCTCGTGTATTTCATTGAGCAG GGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATC
genomic: CTGGCGACCGTGAACTGTCAGAGGACTTGCTCGTGTATTTCATTGAGCAGgtttggttcg ... tgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATC
EST:
gi|67014840|gb|CO443589.1|CO443589EST: TGCCGACCGTGAACTGTCANAGGACTTGCCTC-TGTATTTCATTGAGCAG GGTAAGAAAGAAAGTTTTGCTTTTTGCCCCCTT-ATTTGCTACGACCTGAT
genomic: GGC-GACCGTGAACTGTCAGAGGACTTGC-TCGTGTATTTCATTGAGCAGgtttggttcg ... tgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTC-TTCATTTGCTACGACCTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
ttctgat putative branch site (score: 3)
attagtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA