Sequence
atgc intronic sequence ATGC exonic sequencegttattcatatttctgagttaaattcatattattagcgcaagatcgagtggcaactcacatcaccgtttctcgtttattgttccataacactagtattctgtctgaccaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G141399_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g09230.2 (Oryza sativa), 3'ss of exon 6
gttattcatatttctgagttaaattca-tattattagcg-caagatcgagtggcaactcacatca--ccgtttctcgtttattgttccataa--cactagtattctgtctgaccaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
|| | |||||| | || ||||| | | |||| || |||| | || | | | ||| | | ||||| | | || || | | | | | | || |||||||||||| |||| ||| |||||||| |||||||||||||| | ||||| ||||| || |||| ||||||||||| || || || || ||||||
gtaagccatattaccatgtaaaattttctgtggctagcaacagtgctagacatcaacacttgccaagttatctgttatttctatgtgcataaagtaatgccatactctgtaatc--tccaattacagGTTGGAGGCCTTGCTGACGTTGTCACAAGTCTTTCACGTGCAATTCAAGAGTTAGGCCATCATGTTGAGGTTATTCTCCCGAAATATAATTTTATGAATC
upper sequence: GRMZM2G141399_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA07G39040.1 (Glycine max), 3'ss of exon 4
gttattcatatttctgagttaaattcatattattagcgcaagatcgagtggcaactcacatcaccgtttctcgtttattgttccataacactagtattctgtctgaccaatgctatca-cagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
| || | || || ||| | | || ||| | | || | || | | ||| | ||| | |||||| ||| | || | | ||||||||||| |||||||||||||| |||||||| ||||| || || || |||||| ||||||||||| ||| ||||||||||||| | || |||||||
----------------atttgaggacaaat----gcagcatgcttga-tggacattgccaaagcatgttgtgagtgattttaacatgttttttcaattctga-tgatctatatttttggcagGTTGGAGGCCTTGGTGATGTTGTTACTAGTCTATCACGAGCAGTTCAGGATTTAAATCACAATGTGGATGTTGTTCTTCCAAAGTATGACTGTTTGAATC
upper sequence: GRMZM2G141399_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA13G27480.1 (Glycine max), 3'ss of exon 7
gttattcatatttctgagttaaattcatattat-tagcgcaagatcgagtggcaactcacatcaccgtttctcgtttattgttccataacactagtattctgtctgaccaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
|||| | | || | || || ||| | ||| | | | | | | | | | ||| |||| | | |||||| ||| | | ||||||||||| |||||||| ||||| |||||||| || || ||||| || |||||| ||||||||||| | |||||||||||||| | |||||||| |
---gttcagaaaaaggtatttacttgttactatgttatgcagaggctgtttgtgaactaattaaacacat----ttttctgtttc----tgatggtattc----------atgtt-tggcagGTTGGAGGCCTTGGTGACGTTGTTACTAGTCTATCCCGGGCTGTTCAGGATTTAAATCACAATGTGGACATCATTCTTCCAAAGTATGACTGCTTGAACC
upper sequence: GRMZM2G141399_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA15G11500.1 (Glycine max), 3'ss of exon 7
gttattcatatttctgagttaaattcatattattagcgcaagatcgagtggcaactcacatcaccgtttctcgtttattgttccataacactagtattctgtctg-accaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
||| || | || || || | | | | | || ||| | ||| | || || | ||||| | | ||| | ||||||||||| |||||||||||||| |||||||| || || ||||| || |||||| ||||||||||| | |||||||||||||| | |||||||| |
---------tgttcagaaaaaggtttttac--ttgtttctatgttatgcagaggct---------atttgtgaattaattaaacacaattttctgtttctgatggtattcatgtt--tgcagGTTGGAGGCCTTGGTGATGTTGTTACTAGTCTATCCCGGGCTGTTCAGGATTTAAATCACAATGTGGACATCATTCTTCCAAAGTATGACTGCTTGAACC
upper sequence: GRMZM2G141399_T02 (Zea mays), 3'ss of exon 6
lower sequence: AT1G11720.1 (Arabidopsis thaliana), 3'ss of exon 5
gttattcatatttctgagttaaattcatattattagcgcaagatcgagtggcaactcacatcaccgtttctcgtttattgttccataacactagtattctgtctgaccaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
| | || ||||| | | | | | || ||| | ||| || ||| | | | | | |||||||| || || |||||||||||||||||||| || || ||||| ||||| ||| || |||||||| | || |||||||||| | |||| | || |
-------------------------------gtaaccgtaagatgtgaggttggcctttaaaagcattgtataaatat---------atcctaagtttttgtatatctattaca--tgcagGTTGGTGGCCTAGGTGATGTTGTCACTAGTCTATCTCGCGCTGTTCAAGAATTAAACCATAATGTGGATATAGTTTTTCCAAAGTATGATTGCATAAAGC
upper sequence: GRMZM2G141399_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv10s0116g01730.t01 (Vitis vinifera), 3'ss of exon 9
gttattcatatttctgagttaaattcatattattagcgcaagatcgagtggcaactcacatcaccgtttctcgtttattgttccataacactagtattctgtctgaccaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
|| | ||| | ||| | | | | || | || | | | | ||| | ||| | | | | | | || |||| |||||| ||||| ||||||||||||||||||||||| || |||||||||||||| ||| ||| | ||||| | ||||| |||||||| | || |||||||
-----------------gtagcttgtgtatgaaaagctta----ttaatttcttctgatatttgcttgtttgtttttattttctcaagtttttttgtgtattatattgaaatctattacagGTGGGAGGCCTTGGTGATGTTGTCACTAGTCTATCCCGTGCTGTGCAAGAGTTAAACCACCACGTGGACATCATTCTCCCAAAGTATGACTGTTTGAATCMapped 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|67022688|gb|CO451437.1|CO451437EST: CACCTATGCACATTGTCCACATCGCTGTTGAGATGGCACCAATCGCAAAG GTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGAT
genomic: CACCTATGCACATTGTCCACATCGCTGTTGAGATGGCACCAATCGCAAAGgttattcata ... gctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctcgtttattgttccataacactagtattctgtctgaccaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
gtctgac putative branch site (score: 3)
tttattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattcatatttctgagttaaattcatattattagcgcaagatcgagtggcaactcacatcaccgtttctcgtttattgttccataacactagtattctgtctgaccaatgctatcacagGTTGGAGGTCTTGGTGATGTTGTCACTAGTCTTTCACGTGCTGTGCAAGATTTAGGACACAATGTGGAGGTTATTCTTCCAAAGTACGGTTGCTTGAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG