Sequence
atgc intronic sequence ATGC exonic sequence...taatttctggttttcctttcactcttattagttatattactgatagtctgatgtataactaatcaacttgatatctgttttgggtattacattatcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATG
Basic information
species | Glycine max |
transcript | GLYMA19G02260.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 7
-----------taatttctggttttcctttcactcttattagttatattactgatagtctgatgtataactaatcaacttgatatctgttttgggtattacattatcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATG
|||| ||| | | | | |||||| ||| || || || ||| | || ||| | ||| ||| | || || |||| || |||||||| || | || ||||||||||| || || || || |||||||||||||||||||| || ||||| ||||| || ||||||||||| ||||| ||||
gaaaccaaacaacattttctgttcttcatgtattcttatg---tatttttcttgtatctggatacaaaaataaactttttgttatat-ttctg---attaaatg----tagGTTGGTAACCGATCTAGTGAATTTCATCCTGATGTCAGGAGAGTGAGGCGTGAAGGATCTTACATTTACGAGGAGTTCATGCCTACTGGTGGGACGGATG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 8
taatttctggttttcctttcactcttattagttatattactgatagtctgatgtataactaatcaacttg--atatctgttttgggtattacatt---atcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATG
|||| | || || | | || || | | ||| | || | | | | | | |||| | ||| | | || | ||||||||| ||| | || ||||| ||||| || || || |||||||| ||| | ||||| || ||||| |||||||| |||||||||||||| || || ||||
---cttctcggattga--acattttagtttcaaatgattgtaataatttgtggcacatttctgtggttagcaatatttctttctgacccaatgtttttgttttagGTTGGGAATCGATCAAGTGAGTTTCATCCTGATGTCAGAAGAGTAAGGAGAGAAGGTTCTTATATATATGAGGAGTTTATGCCTACTGGGGGAACTGATG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 7
taatttctggttttcctttcactcttattagttatattactgatagtctgatgtataactaatcaacttg-atatctgttt-tgggtattac-attatcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATG
| | ||| ||| | | | ||| || || || | |||| | || || ||| | | | ||| ||| | | ||||||| || | || ||||| || || ||||| || |||||||||||||||||||| || ||||| ||||||||||||||||| |||||||| |||||||
-cactagatttttagcttctattttcattg--taaatgtttgtccatacatcttatacttcttccgtgtgcatacacacatataatttttattattgtttcagGTTGGTAACCGCTCAAGTGAGTTCCATCCAGAGGTTAGAAGAGTGAGGCGTGAAGGCTCTTATATATATGAGGAATTTATGCCAACTGGAGGAACAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctgatgtataactaatcaacttgatatctgttttgggtattacattatcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATG
ttatctt CT-rich tract
tattacattatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatttctggttttcctttcactcttattagttatattactgatagtctgatgtataactaatcaacttgatatctgttttgggtattacattatcttagGTTGGCAATAGGTCCAGTGAATTTCACCCAGAAGTGAGAAGAGTGAGGCGTGAAGGATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - -tctggtt
- - - - - - - cctttca
- - - - - - - - - - - - - - - - - - - -ctgatag
- - - - - - - - - - - - - - - - - - - - - - - tctgatg