Sequence
atgc intronic sequence ATGC exonic sequencegtacagaatttacacagccatgtaattgtgtgaaacgtgcatagtttttttttcagttttccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G445617_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os04g52690.1 (Oryza sativa), 3'ss of exon 10
gtacag-aatttacacagccatgtaattgt-gtgaaacgtgcatagtttttttttcagtt----ttccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
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gtaaattgatttacacaaccatacaattgccataagatgtgcata--tatgcttacggttgcaactcttctgtcaacctcagGCAAGATCTGCACGGCCATGTGTAATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCCTCAGATTCCGCAGGTGTGATGGATAGAG
upper sequence: GRMZM2G445617_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 10
------------------------------------------------gtaca-gaatttacacagccatgtaattgtgtgaaacgt-----gcatagtttttttttcagtt--ttccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
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gtataataatattccggatttttttatctaaataatttctcaatttgagtaaatgtgtttgtgcctttttactgtgaactaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
upper sequence: GRMZM2G445617_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 15
-------------------------------------------------------gtacagaatttacacagccatgtaattgtgtgaaacgtgcatagtttttttttcagttt---tccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
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gtataataatatttcagtttcttttatctaaataatttctcaagttaaattaaatgtatttgtgtctctttgctgtgaactcaacagtttttagaacagattttgatccaaatgaaattcaaaataattcacagGCCAGATCAGCATGTCCATGTGTCATCTTCTTTGATGAGTTTGATTCTCTTGCACCAGCTCGGGGTGCTTCTGGAGATTCTGGGAGCGTTATGGACAGAG
upper sequence: GRMZM2G445617_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G03000.1 (Arabidopsis thaliana), 3'ss of exon 9
gtacagaatttacacagccatgtaattgtgtgaaacgtgcatagttttt--ttttcagttttccactg-----------tcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
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----gtaagttatatttcttcttccctaggagaagcatattgagtctttggttctgattcttaaactagtgtgttttcttcaattgcagGCAAGGTCAGCGCGACCTTGTGTGATCTTCTTTGATGAGCTTGATTCTCTTGCTCCAGCTCGAGGTGCTTCTGGTGATTCTGGAGGAGTCATGGATCGAG
upper sequence: GRMZM2G445617_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv07s0104g01610.t01 (Vitis vinifera), 3'ss of exon 10
------------gtacagaatttacacagccatgtaattgtgtgaaacgtgcatagtttttttttcagttttc---cactgtcaatctc----agGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
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gtaaagatattcttatgtgatt-agaatgccttgttttgctctaacatgt-tttggttgacctcacaattctgtgacattgggcatcctttgtagGCAAGGTCAGCACGTCCATGTGTTATCTTCTTTGATGAACTTGATTCTCTTGCTCCAGCCCGAGGTGCCTCTGGGGATTCTGGGGGTGTTATGGACAGAGMapped 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|211511143|gb|FL039440.1|FL039440EST: ACATGTATGTTGGAGAATCAGAGAAAAATGTTCGGGATATTTTTGAGAAG GCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTC
genomic: ACATGTATGTTGGAGAATCAGAGAAAAATGTTCGGGATATTTTTGAGAAGgtacagaatt ... tcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTT
EST:
gi|32848459|gb|CD988140.1|CD988140EST: ACATGTATGTTGGAGAATCAGAGAAAAATGTTCGGGATATTTTTGAGAAG GCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTC
genomic: ACATGTATGTTGGAGAATCAGAGAAAAATGTTCGGGATATTTTTGAGAAGgtacagaatt ... tcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaattgtgtgaaacgtgcatagtttttttttcagttttccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
tttttttttcagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacagaatttacacagccatgtaattgtgtgaaacgtgcatagtttttttttcagttttccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA