Sequence
atgc intronic sequence ATGC exonic sequence...aaaggattaattaattaattgtctggtatatatatatatatatatatatatatatatatacacactaataattggtataacttttttggtttatgcaacaGGTATCAGTGCTGGCCCCTAACATCCCAGCAATGTATGAGATGCATTTCGCAGTGCCTATGGCAGGTGCTGTGCTGAACACCATCAACACCCGTCTTGAT
Basic information
species | Glycine max |
transcript | GLYMA18G05110.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G05110.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g03790.1 (Oryza sativa), 3'ss of exon 1
-----------------------------aaaggattaattaattaatt---gtctggtatatatatatatatatatatatatatatat-atacacactaataattggt-ataacttttttggtttatgcaacaGGTATCAGTGCTGGCCCCTAACATCCCAGCAATGTATGAGATGCATTTCGCAGTGCCTATGGCAGGTGCTGTGCTGAACACCATCAACACCCGTCTTGAT-
| || || ||| | | | ||| | | | | | | | | | |||| | |||| | || | | || | | || |||| || || |||| || ||| | || |||||||| |||||||| ||||| ||||| ||||| || || ||||| |||||||||||||| || || ||
gtaagtagatcgaatcctagctacgaatatgaacatacatagcgtaagttcagattcgtagccggaagttggtttcgtttcttgcgtgtcaaacacgtgtgtgattgtttggaatctgtgtgttgtgtgtg-tagGTGTCGGTTTTGGCGCCGAACGTGCCGGCAATGTACGAGATGCACTTCGCGGTGCCGATGGCCGGGGCGGTGCTCAACACCATCAACACGCGGCTCGACG
upper sequence: GLYMA18G05110.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os09g38350.1 (Oryza sativa), 3'ss of exon 1
aaaggattaattaatt-aattgtctggtatatatatatata-tatatatatatatatatatacacactaataattggtataacttttttg-gtttatgcaacaGGTATCAGTGCTGGCCCCTAACATCCCAGCAATGTATGAGATGCATTTCGCAGTGCCTATGGCAGGTGCTGTGCTGAACACCATCAACACCCGTCTTGAT-
| | | || || || | | | | ||| | || || ||||| | | | | || || | | | | | | || | ||| | | ||| || || | || || |||| || || |||| |||||||| ||||| ||||| ||||| || || ||||||||| ||||||||||||| || ||
agaatctaaactattttgggagagttgaaaata-agatgtagtatatgtgtcactctccatgcatgtcacgtgctaatttttgtatcatgtggttacgta---gGTGTCCGTCATCGCGCCCAACACGCCGGCGCTGTACGAGATGCACTTCGCCGTGCCGATGGCCGGAGCGGTGCTGAACGCCATCAACACCCGCCTCGACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatatatatatacacactaataattggtataacttttttggtttatgcaacaGGTATCAGTGCTGGCCCCTAACATCCCAGCAATGTATGAGATGCATTTCGCAGTGCCTATGGCAGGTGCTGTGCTGAACACCATCAACACCCGTCTTGAT
tatatatatacacact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaggattaattaattaattgtctggtatatatatatatatatatatatatatatatatacacactaataattggtataacttttttggtttatgcaacaGGTATCAGTGCTGGCCCCTAACATCCCAGCAATGTATGAGATGCATTTCGCAGTGCCTATGGCAGGTGCTGTGCTGAACACCATCAACACCCGTCTTGAT
- - - - - - - - - ttgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacacac