Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctcgattacctctgcattcctaatttgggtggaattattattccatggttgtggtggaatgtatcttctcatctgtttttgctagaatgttatcattcgtatgattgcatactgaattgtagttgactttgagGTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAAGCACGGCAATTCCTGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057056_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g34850.1 (Oryza sativa), 3'ss of exon 4
gtatgtctcgattacctctgcattcctaatttgggtggaattattattccatggttgt--ggtggaatgtatcttctcatctgtttttgctagaatgttatcattcgtatgattg-catactgaattgtagttgactttgagGTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAAGCACGGCAATTCCTGAAAG
| | | |||| | | ||| ||| |||| | || | ||| |||||||||| ||||||| || | || ||||||||| |||||||||| |||||||||||||||||||||||||||| |||||||| |||||||| |||||||||||||| |||||||||||||
-------------------------------------aacgctgaagttcatgaatatttggttgaacatatc-----agctttatttactagaatgttgtcattcgcattactgtcatactgaactgtagttgaccttgagGTGGTCGTCCATGAAGGGATTATCAGAGAAAAGCCAACCACTAAGGAAGAAGCACGCCAATTCCTGAAAG
upper sequence: GRMZM2G057056_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g34770.1 (Oryza sativa), 3'ss of exon 4
gtatgtctcgattacctctgcattcctaatttgggtggaattattattccatggttgtggtggaatgtatcttctcatctgtttttgctagaatgttatcattcgtatgattg-catactgaattgtagttgactttgagGTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAAGCACGGCAATTCCTGAAAG
| | | || | ||| | ||| || | | | ||| |||||||||| ||||||| || | || ||||||||| || ||||||| |||||||||||||||||||||||||||| |||||||| |||||||| |||||||||||||| |||||||||||||
-----------------------------------ttggttgataag--cataagcataagcgaaaagatgaggttgt---tatttactagaatgttgtcattcgcattactgtcatactgaactgaagttgaccttgagGTGGTCGTCCATGAAGGGATTATCAGAGAAAAGCCAACCACGAAGGAAGAAGCACGCCAATTCCTGAAAG
upper sequence: GRMZM2G057056_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT5G66550.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgtctcgattacctctgcattcctaatttgggtggaattattattccatggttgtggtggaatgtatcttctcatctgtttttg-ctagaatgttatcattc--gtatgattgcatactga-attgtagttgactttg--agGTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAAGCACGGCAATTCCTGAAAG
|| | | |||| | |||||| |||||||||| | || |||| || | || || || | || ||| |||| || || | |||| |||||||||||||||||||||| || |||||||| || |||| | ||||
-----------------------------------------------------------gtatgctttgatgcctcaacactttttgattagaatgttaactttttggtatctttagctgatgttatggtgatggagtttattagGTTGTTGTGTACAAAGGTGTTATTAGAGAAAAACCAACCACTAAAGAAGAAGCTCGTGAATTTATCAAAGMapped 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|88752936|gb|DY537077.1|DY537077EST: ATTATCAGAAAGAAGGCAGTCAACCAACACTCCTGATCACATCTGACATA GTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAA
genomic: ATTATCAGAAAGAAGGCAGTCAACCAACACTCCTGATCACATCTGACATAgtatgtctcg ... tgactttgagGTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgctagaatgttatcattcgtatgattgcatactgaattgtagttgactttgagGTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAAGCACGGCAATTCCTGAAAG
agttgac putative branch site (score: 4)
aatgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtctcgattacctctgcattcctaatttgggtggaattattattccatggttgtggtggaatgtatcttctcatctgtttttgctagaatgttatcattcgtatgattgcatactgaattgtagttgactttgagGTGGTCGTCCATGAAGGGATTATTAGAGAAAAACCAACCACCAAGGAAGAAGCACGGCAATTCCTGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC