Sequence
atgc intronic sequence ATGC exonic sequence...taggtctcattaaaattatagtttctgactttctgtagcattctgcactgccatttcgttctacatccatggtctcttaggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
Basic information
species | Glycine max |
transcript | GLYMA18G47050.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 6
-taggtctcattaaaattatagtttctgactttctgtagcattctgcactgccatttcgttctacatcca-tggtctcttaggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
| || || | || | || || ||| || || | ||| | | | | || | | | | | || | | || ||| |||||||| | ||||||| ||||||||||||||||||| | ||||||||||| | || ||| || | |||| | |||||| || |||||||| | |||
ttctgtatctcctagctttttattccta--tttaaataccaatatgcgggcatgacttgctatctatttagttatatgacatgtttgttgcacttgtcttagGTATGAGCTTCTCTTTTTCCCAAGATATCACCTTGATTATAGCTCATTACTTTACCGGAAATCACTTCTTGGTCGACCAATTGTCATGGATGTCTTCCAG
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 6
taggtctcattaaaattatagtttctgactttctgtagcattctgcactgccatttcgttctacatccat---ggtctct--taggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
| | ||| | | || | | || | |||| || | || || ||| | | || || || |||| |||||||| || | ||||||| |||||||||||| |||||| | ||||| ||||||| ||||||||| |||||| | ||||| || |||||||| | |||
-----tctgctgatatttttatctcattttattaacttaggcctctaatgcctttctaattacaatatattttagtcacagacatgtatcattcttttggctcagGTACGAGCTTCTCTTTTTCCCAAGATATCATCTTGATTATAGCTCTTTACTCTACCGAAAACCACTGCTTGGAAGGCCAATTGTCATGGATGTTTTCCAG
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 7
taggtctcattaaaattatagtttctgactttctgtagcattctgcactgccatttcgttctacatc-catggtctcttaggtctccttgtt--ttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
||| | | | | | | ||| | | | | || | | || || | | | | || || | | | | |||| ||| ||||| |||| || || |||||||||||||||||||| ||||| ||||| ||||| ||| |||||| |||||||||||||||||||| |||||
---aactcttccagacttttttacatgaatgtgataaacgtttctgagcattttgtctttgaatgttgtttaatttcacgtgtatgttcgctaattattgcagATATGAGCTGCTTTTCTATCCAAGATATCACCTTGATCAGAGCTCTTTACTTTGTCGTAAAGTGCTGCTTGGCAAACCAATGGTGATGGATGTTTACCAG
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 7
-------taggtctcattaaaattatagtttctgactttctgtagcattctgcactgccatttcgttctacatccatggtctcttaggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
| || || | |||| || || || |||||| || | || | ||| || | || | || || || || || ||| ||||| |||| || || |||||||||||||||||||| ||||| ||||| ||||| ||| |||||| |||||||||||||||||||| |||||
tactcttccagacttttttacattaatgtgataaacgtttctgagcattttgtctttgaatgttgtt-taatttcacg----tgtatgttcgctaatt--attgcagATATGAGCTGCTTTTCTATCCAAGATATCACCTTGATCAGAGCTCTTTACTTTGTCGTAAAGTGCTGCTTGGCAAACCAATGGTGATGGATGTTTACCAG
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 7
-taggtctcattaaaattatagtttctgactttc---tgtagcattctgcactgccatttcgttctacatccatggtctcttaggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
||| || | | || || | || ||| || |||||| || | ||| | | | || | | | ||| | | ||| ||| ||||||||||||||| || || |||||||||||||||||||| |||||| |||| |||| ||| | |||||||| || || |||||||||||||| || ||
taaggatgcagttttagtagcgtctatggttttaatacagaggattctgtaccttc-tttagattgatat--gttatgttttac-ttatttagttctattacagGTATGAATTGCTTTTCTATCCAAGATATCACCTTGATCAGAGCTCACTACTTGGTCGGAAAACCTTGCTTGCCAAGCCCATGGTGATGGATGTCTATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cactgccatttcgttctacatccatggtctcttaggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
tctccttgttttatct CT-rich tract
ttgttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggtctcattaaaattatagtttctgactttctgtagcattctgcactgccatttcgttctacatccatggtctcttaggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - ttctgac
- - - - - - - - - - - - - - - ttctgta
- - - - - - - - - - - - - - - - - - -gcattct
- - - - - - - - - - - - - - - - - - - - - - -cactgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccttg