Sequence
atgc intronic sequence ATGC exonic sequence...gcaatgattttcaagatttgtctagcgcacccacctatagactatagtgaaatttttgtagctcgttctatgttcttaattgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
Basic information
species | Glycine max |
transcript | GLYMA17G06600.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G06600.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 6
--gcaatgattttcaagatttgtctagcgcacccacctatagactatagtgaaatttttgtagctcgttctatgttcttaattgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
|| | ||| ||||| | | | | || | || | | | | ||| || | |||| | | |||| ||||||| ||||| ||||||||| | |||||||||||||| || ||||| || || ||||| || ||||| ||| || | |||
aaacattcattaattcagtttgtaatttgaggctttgatttccatctaactcaggattggaaacaaaaaatgaattccacatgctttgttccttctg--cagGGTGACAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGGGATCCCAAATACCAGCAGAAG
upper sequence: GLYMA17G06600.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 6
----gcaatgattttcaagatttgtctagcgcacccacctatagactatagtgaaatttttgtagctcgttctatgttcttaattgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
| | | ||| | || | | | ||| || | || | | || | | | ||| | || | || || | || |||| |||||| ||||||||||||| ||||||||| | ||||| |||||||||||||| || || || |||||| ||||| || || || |||||
tttcactagcaagctcatgtttaatgtggaatgggtaccatctga-tctatttacatatgtct--ttcggtttagttgattgtttacttctttcttgtt-ttagGGAGACAGTATTCTTGCAGATTCTGGTACTGAGCAGCTTGAATTTATTGCCCTTTCCCAGAGGACAGGGGACCCAAAATATCAGCAAAAG
upper sequence: GLYMA17G06600.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0052g00140.t01 (Vitis vinifera), 3'ss of exon 6
gcaatgattttcaagatttgtctagcgcacccacctatagac-tatagtgaaatttttgtagctcgttctatgttcttaat-tgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
|| | | | | | | || | || | | || | | || || | | | | ||||| | | || || || ||||||||||||| | || || |||||||| ||||||| ||||||||||||||| | ||||||||||||| |||||||||||| || | |||
--tatagacagagaattaggcattgagattgatactttgcaccttttctggagctgtttactcttttcttcttctgttaatctaaagagtcccttttcctagGGAAACAGTGTCCTGGCAGATTCTGGAACAGAGCAGCTTGAATTTATTGCTTTATCTCAAAGGACAAGGGACCCCAAGTACCAGAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgaaatttttgtagctcgttctatgttcttaattgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
tcgttctct CT-rich tract
aatttttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaatgattttcaagatttgtctagcgcacccacctatagactatagtgaaatttttgtagctcgttctatgttcttaattgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - -cacccac