Sequence
atgc intronic sequence ATGC exonic sequenceGCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgtatattattgaatagtcactgtacttcgtcgttttgaacttttatgtattccctgtgttccag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgtatattattgaatagtcactgtacttcgtcgttttgaacttttatgtattccctgtgttccag
||| ||| |||||||||||||||||||||||||||| || ||||| ||||||||||||||| | ||| ||||||| || ||||||||||||||||| || |||||| || || | | | ||| ||| | || ||| || ||||| || ||| || | || | |||
GCGATGTATTCATTCTTATGCTGTGCATACTGATTCAGTCTGGGCGCTTGCAAGCACTCCTTCGTTTAGTCATGTTTATAGTGGTGGAAGAGATCAGTCGgtgagtcaagtt--------tcaaatgttgcataattgcttcttttctgaattctgaaccttcctgt-tttcttggatggcag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA10G30050.1 (Glycine max), 5'ss of exon 8
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgtat-----attat--------tgaatagtcactgtacttcgtcgttttgaacttttatgtattccctgtgttccag-------------------------
|| ||||| ||||||||||| || ||||| |||||| ||||||| |||||||||||| | ||||| ||||||| || |||||||| ||||| ||||||||| | || | | || ||||| ||||| | | || | |||||| ||| || | |||||| | |
ACGCTGTGTGCATTCTTATGCAGTTCATACAGATTCTATTTGGGCTCTTGCAAGCACTTCAACATTTAGTCATGTTTATAGTGGTGGTAGAGACTCTTCTgtgagtgcagtttttcgataaatttttaattatcatgactttgaatttatatgatgtctccttgttttgcttaatta-gtgaagcttgtgttactgattcgtaattcttttatttttgtag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA03G40360.1 (Glycine max), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatct--tgtgtatattattgaatagtcactgtacttcgtcgttttgaactt---ttatgtattccctgtgttccag---------------------------------------------------
| | ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||| || ||||| ||||||| || ||||| || ||||| || |||||| | ||| | | || || || | | | | | | ||||| || | | || || || |
GAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTATAGTGGAGGGAGAGACTTTTCAgtgagtgcgaccttctattaaatttaacatcaaactatttttttgttattacatcttgaatttatgtcacataacatctccttttcttgtttaacttgtgaacctcatcttctaatgttgtattcttttataccctaag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA03G40440.4 (Glycine max), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgta--tattattgaatagtcactgtacttcgt-----cgttttgaacttttatg----tattccctgtgttccag--------------------------------------------------
| | ||||| ||||||||||| || ||||| ||||||||||||||||| || ||||| || |||||| ||||||| || ||||| || ||||| || |||||| ||| ||| | | || || || | | | | | | | |||||||| | || || | | |||| |
GAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTATAGTGGCGGGAGAGACTTTTCAgtgagtgaaaccttctattaaaattaacatcaaactatatttttttattattactacatcttgaacttatgtgacatcatatctccttttcctgtttaacttgtgaacctcatcttctaatgccgtattcttttataccttaag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA19G43070.1 (Glycine max), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgta--tattattgaatagtcactg-----tacttcgtcgttttgaacttttatgtattc----cctgtgttccag--------------------------------------------------
| | ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||| || ||||| ||||||| || ||||| || ||||| || |||||| ||| ||| || | || || || | | || | | | |||| || | || | || | | |||| |
GAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTATAGTGGAGGGAGAGACTTTTCAgtgagtgaaaccttctactgaaattaacatcaaactattttttattattattattacatcttgagtttatgtgaaatcacatctccttttcctgtttaacttgtgaacctcgtcttctaatgtcatattcttttatgccttaag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA19G42990.1 (Glycine max), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatct--tgtgtatattattgaatagtcactgtacttcgtcg--ttttgaactt-ttatgt-attccctgtgttccag--------------------------------------------------
| ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||| || ||||| ||||||| || ||||| || ||||| || |||||| || ||| | | || || || | | || || | ||||| || | | | | | | ||| |
AAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTATAGTGGAGGGAGAGACTTTTCAgtgagtgcaaccttctattaaatttaacatcaaactaattttttttatcatcacatcttgaatttgtcacattacatctccttttcttgtttaactagtgaacctcgtattctaatgttgtattcttttataccctaag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaatt--atcttgtgtatattattgaatagt---cactgtacttcgtcgttttgaacttttatgtattccctgtgttccag----
||| ||| ||||| | ||||| |||||||| |||||||||||||| |||||| ||| || ||||| ||||||| || || ||||||||||| |||| ||||||| | | ||||| | | | ||| | || ||| | || |||| | ||| || ||| | |||| | |
GCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTATAGCGGTGGAAGAGACCAATGTgtgagtagacaccaaacttgtttctttctttggttttcttccagcgtataacctccttttttaatttcatttatctgttatgtttccgtcag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgtatattattgaat--agtcactgtacttcgtcgttttgaacttttat-gtattccctgtgttccag-------------------------------------------------------------------------------------------------------------
| | || || ||||| ||||| |||||||| |||||||| ||||||||||||||||| || ||||| | ||||| || |||||||| || || | || |||||| | || ||| | | | ||| | | | || | || || | | |||| | | | | | ||
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: PP1S69_10V6.1 (Physcomitrella patens), 5'ss of exon 9
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagtt-------aaattatcttgtgtatattattgaat--agtcactgtacttcgtcgttttgaacttttatgtattccctgtgttccag--------
|| || ||||||||||||| || ||||| |||||||| ||||| ||||||||||| ||| | || |||| || || ||||| || | || ||||| ||| | ||| |||| | || | ||| | | | | | | | |||| | || || | | |
ACGCTGCATTCATTCTTATGCAGTTCATACAGATTCTGTCTGGGCTCTTGCAAGCACGCCTTCCTTCAGTCACGTGTATAGTGGCGGTCGTGACTTTTCTgtacgttcctacaaaggcctcctttagtatttcgcagatttcagtgctttcaaattgcgatcattacttttttagcatcaccaccttacaaatgcccatg
upper sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
lower sequence: PP1S28_153V6.1 (Physcomitrella patens), 5'ss of exon 7
---GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagtta---aattatcttgtgtatattattgaatagtcactgtacttcgtcgttttgaacttttatgtattccctgtgttccag----------------
||||| ||||||||||||| || || | ||||||||||||||| ||||||||||| || |||| ||||||| || |||||| | || ||||| |||| || || | || | ||| | | | || || || | || | | || || | || |
ACAACGTTGCATTCATTCTTATGCGGTTCACATTGATTCTGTTTGGGCCCTTGCAAGCACGCCATCATTCAGTCATGTGTATAGTGGTCGC---GACTTCTCTgtaagttctttaaaggactacttaatgcttttggctgttggcagttct--gttcacgttaatcatcacaatttacccatcttgtaaatatttgataattacaMapped 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|71433407|gb|DR814457.1|DR814457EST: CAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCT GTATACCTAACAGATTTGTCCACAAGAGAGAGTCTTTTACTCTGCACAAAT
genomic: CAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaa ... tgtgttccagGTATACCTAACAGATTTGTCCACAAGAGAGAGTCTTTTACTCTGCACAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgtatattattgaatagtcactgtacttcgtcgttttgaacttttatgtattccctgtgttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA