Sequence
atgc intronic sequence ATGC exonic sequenceTTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatatttatgatttatctcaccatcttcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
Basic information
species | Glycine max |
transcript | GLYMA09G42180.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os10g34710.1 (Oryza sativa), 5'ss of exon 13
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatatttatgatttatctcaccatcttcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
||| | |||||||| || || || || ||| | |||||||| | || || || ||||||||||| ||||| |||||||||||||||||||| ||| ||||| | || || | || | | | | | | || |||| | | | || | | ||| | || ||| |
GTGGCTTGTTGAACAAATTAACAAGTCTCTTTCAGTTGGCAAGCGTCGAACTGGGAGATCAATCAGCATTCTTGATATCTATGGCTTTGAATCATTCGATgta-atgtac-ttccatttgacatgc---------tgtcatcatattttaattggcaaatggtttctcatgtcataacacaaaattgcag--------------------------------
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G139583_T02 (Zea mays), 5'ss of exon 13
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatattt-atgatttatctcaccatcttcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
||| | || ||||| || ||||| || || | |||||||| | || || || ||||| ||||||||||| |||||||||||||||||||| || ||||| | || || |||| ||| | | || ||||||| | | | | | ||| | | | | || | | | | |
ATGGCTTGTAGAACAAATTAATAAGTCTCTCTCAGTTGGCAAGCGTCGAACTGGGAGATCTATCAGTATTCTTGATATCTATGGCTTTGAATCATTTGATgta-atatacctt---ttttacctaaagttgtc-atatattagaagggcaggcctgttgcgatggtgagaattg-tctcactaagttaccaggtagcgggttcgaa-----------------
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G113202_T01 (Zea mays), 5'ss of exon 13
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatatttatgatttatctcaccatcttcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
||| | || ||||| || ||||| || || | |||||||| | || || || ||||| ||||||||||| |||||||||||||||||||| || ||||| | | | ||||| ||| | | || |||||| ||| | || || | | | ||| |||| ||||||
GTGGCTTGTAGAACAAATTAATAAGTCTCTCTCAGTTGGCAAGCGTCGAACTGGGAGATCTATCAGTATTCTTGATATCTATGGCTTTGAATCATTTGATgtaa---tgcacttttctttacctaaagttgtc-atatat-----attaaattccatatagttact---tctgacattatcatatttgcag-------------------------------
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 5'ss of exon 14
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatatta---aactttatctacatctttctatatat--ttatgatttatctca-ccatcttca----tcctgtttgatattaaaatattttggctctactgatg---ctatgcattt-tatgcctgcag-------------------------------------------------------------
||| ||||||||||||| || ||||| |||||||| || || || || || |||||||| ||||||||||| |||||||| ||||||||||| || ||||||||| | || || | | | | | || | | ||| ||| | || | ||| | | | | ||||| || | | | | | | | | || | || | | ||| |
CTGGCTGGTTGAACAGATCAACAAATCTCTTGCTGTGGGAAAGAGGCGAACTGGCAGATCTATCAGTATTCTTGATATCTACGGCTTTGAATCATTTGATgtatgttcctgttctctggctctctgagctttctcctgaaaaagattacaattgctaccagctatcattagaccttcagtttgcaatgataccaaacagtgccaaatagtagaactctatatctatgtgcttttgtgtttccatttcttgatttatgtgtcttattgatttgctatacgactttcattcctctgcag
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 5'ss of exon 14
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaa-ctttatctacatctttctatata----tttatgatttatct--------caccatcttcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
||| | ||||||||||| || ||||| ||||| || || || || | || |||||||| ||||| ||||| |||||||||||||||||||| ||||||||||| | | || | || | | | | || || || | || | ||||| || | ||| | ||| || || | || | | | |||| || | | ||| |||||
CTGGCTAGTTGAACAGATTAACAAATCTCTTGCGGTGGGAAAGAGGAGAACTGGCAGATCCATCAGCATTCTTGATATCTATGGCTTTGAATCATTCAATgtatgctggtttttagtctccctttgcgttttactgcatgaacttacataagctatctgcacattacatcttctgtgttacattttgtaccaatgttaatttggtttgctgaataaatactatacatgt-tgcag
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 13
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatatttatgatttatctcaccatct-tcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
||| |||| ||||| || || || ||||||||||| || ||| | ||||| |||||||| || || ||||| ||||||||||| |||||||| ||| ||||||| |||||| |||| | | || | ||| |||| | ||| | || | | ||| | || | ||||||| ||| || ||| | | | |||
CTGGCTGGTCGAACAAATCAACAAGTCACTTGCTGTAGGAAAACGGCGTACTGGCAGATCCATTAGCATTCTTGATATCTATGGATTTGAATCATTCGATgtatg---atatta---tttagtttctgctgtaaata-atttttcattccccccattccccattgtccccctaaatttataaatattc-----------atgttacatattctgtttttccag
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S104_215V6.1 (Physcomitrella patens), 5'ss of exon 13
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatatttatgatttatctcaccatc-ttcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
|||| ||||||||| |||| |||||||| | | |||||| || || || ||||||||||| ||||| ||||||||||| |||||| ||||||| ||| | ||| | | ||| | || ||| | ||| | ||| | | || | | || ||| | ||| | | | | | | | ||| ||
TTGGCTGGTTGAACGTGTAAACAAATCACTGGAAGCTGGCAAGTTGCGAACTGGAAGATCAATCAGCATTCTGGATATCTATGGATTTGAAACTTTCAAGgta-----------atttttcttcgctccttccaatgcattcaaaattc-taacacaaccatttggcattagtgtcattgg--tgtttcgaccccgact-tcccacg-gtttgctg-------
upper sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S199_21V6.1 (Physcomitrella patens), 5'ss of exon 13
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatatttatgatttatctcaccatcttcatcctgtttgatattaaaatattttggctctactgat-gctatgcattttatgcctgcag
|||| ||||| ||| | || || || | | |||||||||| || || || ||||||||||| ||||||||||| ||||| |||||||||||| | ||| ||| || || | || | ||| | | ||| || || | || | | || || || ||| | || | | |||| | | |||
TTGGCTGGTTCAACGTGTCAACAAGTCTTTGGAAGTTGGCAAAACACTGACTGGAAGATCAATCAGCATTCTAGATATTTATGGATTTGAATCTTTCCAGgta-gttcatcttca-ctgtttctgatgtatgcactattttgatcaattgtttt-tggcattgatgct-tttattgttgggaccatagtctcctaccgttcgct-------------------Mapped 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|6228015|gb|AW156543.1|AW156543EST: GATATCTATGGCTTTGAATCTTTCAAT AGGAACAGTTTTGAGCAGTTCTGCATAAATTATGCAAATGAGAGATTACAG
genomic: GATATCTATGGCTTTGAATCTTTCAATgtatgtttat ... atgcctgcagAGGAACAGTTTTGAGCAGTTCTGCATAAATTATGCAAATGAGAGATTACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGACGTACCGGCAGATCAATCAGTATTCTAGATATCTATGGCTTTGAATCTTTCAATgtatgtttatattaaactttatctacatctttctatatatttatgatttatctcaccatcttcatcctgtttgatattaaaatattttggctctactgatgctatgcattttatgcctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA