Sequence
atgc intronic sequence ATGC exonic sequence...ttgatctcctattgtcttttcgtctacatttctagagcttgttctccatttacaattacctttctgtttaaatacttaaaattgctatcatctttcacagATTATTGCCATCAAGGATATCATACGACCCCCCAAAAAGGAAACCTTCAATGATGTGTACATTGTTTATGAATTGATGGACACTGATCTTCACCATATAA
Basic information
species | Glycine max |
transcript | GLYMA05G37480.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37480.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g38950.1 (Oryza sativa), 3'ss of exon 2
ttgatctcctattgtcttttcgtctacatttctagagcttgttctccatttacaatt---acctttctgtttaaatacttaaaattgctatcatcttt----cacagATTATTGCCATCAAGGATATCATACGACCCCCCAAAAAGGAAACCTTCAATGATGTGTACATTGTTTATGAATTGATGGACACTGATCTTCACCATATAA
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-------ttccttttttttttgttgggcggtcaagagcgtgtgatacatttttgactcacacatttatatcatatagtctgatggtgattttaacactggatcacagATTATTGCCATAAAGGACATAATTCGCCCCCCAAGAAGAGACAACTTTAATGATGTTTACATTGTTTCTGAGTTGATGGATACTGATCTCCATCAGATCA
upper sequence: GLYMA05G37480.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g06060.1 (Oryza sativa), 3'ss of exon 2
ttgatctcctattgtcttt-tcgtctacatttctaga-gcttgttctccatttacaattacctttctgtttaaatactta-aaattgctatcatctttcacagATTATTGCCATCAAGGATATCATACGACCCCCCAAAAAGGAAACCTTCAATGATGTGTACATTGTTTATGAATTGATGGACACTGATCTTCACCATATAA
||| ||| | | | ||| |||| | || | | || | ||| | | | | | | | ||| | ||| |||||||| | || | || ||||| |||||||| || || | | ||| | |||||||||||| |||||||| ||||| | |||||||||||||||||||| |
---gtcttttatcttggcaatactagggattgttagatgattagatagtaacaagaaacaattttttttgtgacttgtgacaaaatctagccatttttcacagGTCATCTCAATAAAGGACATCATACGGCCACCAAGGAGGGAGAACTTCAATGATGTCTACATTGTCTATGAGCTCATGGACACTGATCTTCACCACCTTC
upper sequence: GLYMA05G37480.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0025g00270.t01 (Vitis vinifera), 3'ss of exon 2
ttgatctcctattgtcttttcgtctacatttctagagcttgttctccatttacaattacctttctgtttaaatacttaaaattgctatcatctttcacagATTATTGCCATCAAGGATATCATACGACCCCCCAAAAAGGAAACCTTCAATGATGTGTACATTGTTTATGAATTGATGGACACTGATCTTCACCATATAA
|| || | ||| | | | | | || || | | | | | ||| | ||| || | | ||||| |||||||||||||||| || |||||||| || || |||||||| ||||||||||| ||||||||||||||||||||||||||||||||||| || || |
tttgccttgttatgtttgtctgggagtgtgtgtacagttatcatgacctattttttcgcctgaaacatggaatcattgcccagttctttccttgccacagGTTATTGCCATCAAGGACATTATACGACCACCAAAGAAGGAAACTTTCAATGATGTCTACATTGTTTATGAATTGATGGACACTGATCTTCATCAGATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatttacaattacctttctgtttaaatacttaaaattgctatcatctttcacagATTATTGCCATCAAGGATATCATACGACCCCCCAAAAAGGAAACCTTCAATGATGTGTACATTGTTTATGAATTGATGGACACTGATCTTCACCATATAA
tcatctttc CT-rich tract
tttctgtttaaatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgatctcctattgtcttttcgtctacatttctagagcttgttctccatttacaattacctttctgtttaaatacttaaaattgctatcatctttcacagATTATTGCCATCAAGGATATCATACGACCCCCCAAAAAGGAAACCTTCAATGATGTGTACATTGTTTATGAATTGATGGACACTGATCTTCACCATATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - -cctattg
- - - - - - - - - - - -ctacatt
- - - - - - - - - - - - - - - - - gagcttg
- - - - - - - - - - - - - - - - - - - - -ttctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctatc