Sequence
atgc intronic sequence ATGC exonic sequence...agcttactagaaagcctaggcaggttgggttgtctcaaggcaggatggaaggaagggttgcctttcagaatggaatttaagaccttatttttgtttgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g25734.1 (Oryza sativa), 3'ss of exon 4
----------------------------------------------------------------------------------agcttactagaaagcctaggcaggttgggttgtc--tcaaggcaggatggaaggaagggttgcctttcagaatggaatttaagaccttatttttgtt---tgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
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gtatggaaagctcgctgtttagtagccttttgttttcttcagtttattactgctgcttttatgattgttagcatttgaccttctctcactgaaatattgtcatggcatatgtaataaattacttttttattacttgtaggtcatgtgctatatttgctgcttaagaatctatttttgttgtctgcagGTACAAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATT
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 4
--------------agcttactagaaagcctaggcaggttgg-gttgtctcaaggcaggatggaaggaagggtt--gcctttcagaatggaatttaagac-cttatttttgtttgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
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gtatgtgttccttctggttatttaatattacgaaaactttcttgtcattttcttgcatagcaaaatttagcatgcaattttttagaatgttgtatggcatgtttgtgtatattcacagGTGCAAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATTGAGGCTTTCTATAATGCAAATCTGGGAATCACCAAAAAGCCTGTGCCTGACT
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 4
-----------------------------------agcttactagaaagcctaggcaggttgggttgtctcaaggcaggatggaaggaagggttgcctttcagaatggaatttaagaccttatttttgttt--------------------------------------------------------------gcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
|| || || || || ||| ||||| || ||||| |||||||||| ||||||||||| || ||||| || | ||| || ||||||||||| ||||||| ||||| ||||| | || || |
gtgattcctggtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaaaactttcttgttattttcctgcatggtaaattagcatgcaattttttgagaatatgtacggcatgtttgtgtgtattcacagGTGCAAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATCGAGGCTTTCTATAATGCAAATCTGGGAATCACCAAAAAGCCTGTGCCTGACT
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT5G48300.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------agctt--actagaaagcctaggcaggt-tgggttgtctcaaggcaggat---ggaaggaagggttgccttt-----------cagaatggaatttaagacct--tatttttgtt---------tgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
|| || | | | || | ||| || | ||| | || | | ||| || | | | | | | ||| || |||| || |||| | ||||||| || ||||| || |||||||||||||||||||| || ||||| || | |||||||||||| || || | ||||| |||||||| ||| | || ||||
gtgagtgtttatattcatgtttacaacatctagtttgtattctgatgctcaagcaagtctctgttactctatggtttgctttcggattcaacagcttcttgtagctgattatgctatgcagaaggcaaaacctgctaactttgatcatgggcactgcagGTGCAAGCTTACCTATATGATGGTTACTGGGAAGACATTGGTACTATAGAGGCATTTTATAACGCTAATCTTGGAATCACCAAGAAACCAGTTCCTGATT
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 3'ss of exon 4
--agcttactagaaagcc---taggcaggttgggttgtctcaaggcaggatggaaggaagggttgcctttcagaatggaatttaagaccttatttttgtttgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
| | ||| |||| | || || | ||| | | | || | |||||| | || | || || | | | || |||| || ||||| |||||||||| ||||||||||| || ||||| |||| ||| |||||||| || || ||||| || || |||||||| | |||||||
tatgatcactggaaattccgataatcaaaat--gttattttatctgcatttgccttcttaagagaactttca---tagagtcaaattgctgcataatctctgtagGTGCAAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATTGAGGCTTTTTATAACGCTAATTTGGGGATCACAAAGAAGCCGGTGCCAGATT
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 4
lower sequence: PP1S76_105V6.1 (Physcomitrella patens), 3'ss of exon 4
agcttactagaaagcctaggcaggttgggttgtctcaaggca--ggatggaaggaagggttgcctttcagaatggaattta--agaccttatttttgtttg-cagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
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-----gtagggtgagctgtgaatttccatacaacctcagccattggaggtaataaatagtagttgtacgtaatgttcctgagaagatttttgttctgtttatcagGTTCAAGCTTATTTGTACGATGGCTACTGGGAAGATATTGGAACTATTGAAGCATTCTACAATGCCAATCTGGGCATCACTAAGAAACCTGTTCCTGATTMapped 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|56691604|gb|CX129507.1|CX129507EST: ATGACTTTGGAAGTGAGGTTATTCCAGGTGCAACCAGCATTGGAAAGAGG GTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCG
genomic: ATGACTTTGGAAGTGAGGTTATTCCAGGTGCAACCAGCATTGGAAAGAGGgtatgcaaag ... ttgtttgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCG
EST:
gi|67037455|gb|CO464271.1|CO464271EST: ATGACTTTGGAAGTGAGGTTATTCCAGGTGCAACCAGCATTGGAAAGAGG GT-CAGGCTTATCTGTATGATGGNTACTGGGAAGATATCGGTACCATTGCG
genomic: ATGACTTTGGAAGTGAGGTTATTCCAGGTGCAACCAGCATTGGAAAGAGGgtatgcaaag ... ttgtttgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggaaggaagggttgcctttcagaatggaatttaagaccttatttttgtttgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
ccttatttttgttt CT-rich tract
ttatttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcttactagaaagcctaggcaggttgggttgtctcaaggcaggatggaaggaagggttgcctttcagaatggaatttaagaccttatttttgtttgcagGTTCAGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC