Sequence
atgc intronic sequence ATGC exonic sequenceGCATCATTTGGATGATAGTCAGCAGGGTAAAAACTTCACTTTTAAATGCCATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCTgtaagatttatgtcccatctgtgccttaatattctgatttaatttggtttacttaaaattgttgaagttgcaccactacctttgaattttagtaggatca...
Basic information
species | Glycine max |
transcript | GLYMA08G19260.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G058498_T01 (Zea mays), 5'ss of exon 8
GCATCATTTGGATGATAGTCAGCAGGGTAAAAACTTCACTTTTAAATGCCATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCTgtaagatttatgtcccatctgtgc-cttaatattctgatttaatttggtttacttaaaattgttg-aagttgcaccactacctttgaattttagtaggatca
|||||| | ||||| ||||| | ||||||||||| || |||||||| || || || ||||| |||| ||| ||||| || | |||||||| |||||||||||| | || || | | || | || ||||| ||| | ||| || | || | | | | || || |
TCATCATATCGATGACGCACAGCAAAGCAAAAACTTCACATTCAAATGCCACAGGGAAGGAAATGATATATTCTCTGTCAATTCACTCAACTTCCACCCTgtaagatttctctcttcgctcttcactctccactcattattaataaaacataccacatgttgctgtgaagcatactgatgcagtatacacttgtgggggt--
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G80670.1 (Arabidopsis thaliana), 5'ss of exon 8
GCATCATTTGGATGATAGTCAGCAGGGTAAAAACTTCACTTTTAAATGCCATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCTgtaagatttatgtcccatctgtgccttaatattctgatttaat--ttggtttacttaaaat-tgttgaagttgcaccactacc-tttgaattttagtaggatca--
|||||| |||||||| ||| ||| | ||||||||||| || |||||||| ||||| || ||||| ||||| || ||||||||| | || ||||| || ||||| | ||| | | | | | ||| || || || | ||| | | || |||||| | | | ||||| || | || | | |
TCATCATCTGGATGATTCTCAACAGAGCAAAAACTTCACATTCAAATGCCACAGAGATGGAAATGATATATATTCTGTCAACTCTCTGAATTTCCACCCGgtaagctctat-ctatagttatactcttatactcgtatgtattctttgaagccttcagcatatgttgagcgatgaaaatgattgtttgagttgttgtggatttaag
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0002g09150.t01 (Vitis vinifera), 5'ss of exon 7
GCATCATTTGGATGATAGTCAGCAGGGTAAAAACTTCACTTTTAAATGCCATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCTgtaagatttatgtcccatctgtgccttaatattctgatttaatttggtttacttaaaatt--gttgaagttgc--accactacctttgaattttagtaggatca
|| ||| |||||||| || || |||||||||| ||||||||||| ||| ||||||| ||||| ||||||||||| ||||| |||||||| ||||| |||||||| ||| | | | | || | ||| | | | ||| || || | | | ||| | || | ||| ||| | | | ||
ACACCATCTGGATGATGCACAACAAAGTAAAAACTTTACTTTTAAATGTCATCGAGAGGGAAATGAGATATACTCAGTTAACTCATTAAACTTTCATCCAgtaagattc-tgtttccttcaaatttcctttttgtcattcactgtt-tttgtttgaaggtaggctctcattgtttatgacaatcttaaaatagt--ttgtctct
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv12s0055g00900.t01 (Vitis vinifera), 5'ss of exon 8
GCATCATTTGGATGATAGTCAGCAGGGTAAAAACTTCACTTTTAAATGCCATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCTgtaagatt-tatgtcccatctgt----gccttaatattctgatttaatttggtttacttaaaattgttgaagttgcaccactacctt--tgaattttagtaggatca
|||||| | |||||| || || |||||||||| |||||||||||||| || || |||||||| ||||||||||| |||||| |||||||||||||||||||||| || | | || | || | | || || | || | | | | |||| | | | ||| | | | || |
ACATCATCTTGATGATGCACAACAAAGTAAAAACTTTACTTTTAAATGCCACAGGGAAGGCAATGAGATATACTCAGTGAACTCTCTAAACTTCCATCCTgtaagattctacattgcccttgcaatagttctagttattgaatatatctctgtgcatgtgca-tggttgcctgtatattgggagcttgtttattctttgct------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|5760085|gb|AI965448.1|AI965448EST: ATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCT GTACACCACACATTTGCAACTTCTGGTTCTGATGGTGCTTTCAATTTTTGG
genomic: ATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCTgtaagattta ... cgatttttagGTACACCACACATTTGCAACTTCTGGTTCTGATGGTGCTTTCAATTTTTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATCATTTGGATGATAGTCAGCAGGGTAAAAACTTCACTTTTAAATGCCATAGAGAGGGCAATGAAATATACTCAGTCAACTCTTTAAACTTCCATCCTgtaagatttatgtcccatctgtgccttaatattctgatttaatttggtttacttaaaattgttgaagttgcaccactacctttgaattttagtaggatca
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG