Sequence
atgc intronic sequence ATGC exonic sequence...gcttattatggatttggaaatggcctgtatatgtattcaaattatgcgaaatgagaactcctgcgatagcataatatttttttttctacaaatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 2
gcttattatggatttggaaatggcctgtatatgtattcaaattatgcgaaatgagaact-cctgcgatagcataatatttttttt---tctacaaatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
| ||| | ||| || | ||| | | ||| || || ||||| ||||| |||| | ||| ||||| ||| ||| || ||||||||||| || |||||||| ||||||||||| |||||||||||||||||||| |||||||||
---ttgtataactagggacattgtaatgttatattatttgcatatctgatttgtgaacttcctgcagcggcatgacattctttttcattctgtaaa-atttcagGTACCATAGGGCATGTGGCCCATGGAAAGTCCACTGTTGTGAAGGCTATATCTGGAGTTCAG
upper sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 2
-----gcttattatggatttggaaatggcctgt-atatgtattcaaattatgcgaaatgagaactcctgcgatagcataatatttttttttctacaaatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
| | | || ||| | | |||| ||| || ||| ||| ||| || || ||||||| |||| ||||| ||| || | | |||||||||||||| |||||||| ||||||||||| || |||||||| |||||||| |||||||||
tttgtgttgactagggacattgcaatgttatgttatttgtcttctgattttgtgagc------ctcctgcatgggcatgatattctttgttgttttgtaacatcagGTACCATTGGGCATGTGGCCCATGGAAAGTCCACCGTTGTGAAAGCTATATCTGGAGTTCAG
upper sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G04170.1 (Arabidopsis thaliana), 3'ss of exon 2
gcttattatggatttggaaatggcctgtatatgtattcaaattatgcgaaatgagaactcctgcgatagcataatatttttttttctacaaatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
| | | ||| | | | | ||||| || | || || || | |||| | | || | | || || | ||||| |||||||| ||||| |||||||||||||| |||||||| || ||||| || || || |||
----gtaacgcttttttgagt--cttttatataagttgatgttgaagaaactggcagttcctataagctaaagatgatagtgtt-------atgtttcagGAACCATTGGTCATGTCGCTCATGGAAAGTCCACTGTTGTTAAAGCTATTTCTGGTGTCCAG
upper sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------------------------------gcttattatgga----tttggaaatggcctgtatatgtattcaaattatgcgaaatgagaactcctgcgatagcataatatttttttttctacaaatatc------tcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
||| | || ||| |||| ||||| || || | || || | || | || || | | |||| || | ||||| || ||||| |||||||||||||| ||||| || ||||| || |||||||| || ||||||
gtaattagcttatggaatgcttgaactaccttaccttagattagtcatcatatttactgcagaaggctttataaatc-cctgtctaggtgatggtcagctgtaaatcctaatcttttatatcagttgaagttgataatttcagttgattttatcttttcagGCACAATTGGTCATGTGGCTCATGGGAAGTCCACAGTTGTAAAAGCTATATCTGGTGTTCAG
upper sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------gcttattatggatttggaaatg-gcctgtatatgtattca---aattatgcgaaatgagaactcctgcgatagcataatatttt---tttttctacaaatatctc--------agGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
| | | || || || | ||| | | | || || ||| | || | | ||||| | || | || | |||||| ||||||||||||||||| || ||||| || || |||||||| ||||| || || |||
gtaagcgattaggggattccgatgtagggttcgaggttgggtgtgtccgtgcgtgtgtgtgtgtttgttcgccgagggaagcttgtagtatgtagtgtagtgtggcggtcggcaattttaagtgttgttgttgatgttgtggtggaatagGTACAATTGGCCATGTGGCTCACGGGAAGTCGACAGTAGTGAAGGCCATATCTGGTGTGCAGMapped 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|148932915|gb|EE285716.2|EE285716EST: TGACCCACTGTCACCTGAAGTTATCTCACGCCAAGCAACAATCAATATTG GTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATAT
genomic: TGACCCACTGTCACCTGAAGTTATCTCACGCCAAGCAACAATCAATATTGgtatggatgc ... aatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATAT
EST:
gi|148952113|gb|EC897906.2|EC897906EST: TGACCCACTGTCACCTGAAGTTATCTCACGCCAAGCAACAATCAATATTG GTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATAT
genomic: TGACCCACTGTCACCTGAAGTTATCTCACGCCAAGCAACAATCAATATTGgtatggatgc ... aatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcgaaatgagaactcctgcgatagcataatatttttttttctacaaatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
atagcataatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttattatggatttggaaatggcctgtatatgtattcaaattatgcgaaatgagaactcctgcgatagcataatatttttttttctacaaatatctcagGTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - gcctgta
- - - - - - - - - - - - - - -tatgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctgc