Sequence
atgc intronic sequence ATGC exonic sequencegtttgttctctggtgtctggcaatcaatttcttgttactactttaatatattttaaacttttacctgaaaccttaacgtgaaattgtaataatacagGCTTTACTCGAGGCGATGGAGCAACAGTGTGTCTCTATTGCAAAGGCGGGATTAGTAGCAAGTTTATCATCCAGGACTTCTGTCTTAGCGGCTGCAAACC
Basic information
species | Glycine max |
transcript | GLYMA19G36230.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36230.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g38850.1 (Oryza sativa), 3'ss of exon 9
gtttgttctctggtgtctggcaatcaatttcttgttactactttaatatattttaaacttttacctgaaaccttaacgtgaaattgtaataatacagGCTTTACTCGAGGCGATGGAGCAACAGTGTGTCTCTATTGCAAAGGCGGGATTAGTAGCAAGTTTATCATCCAGGACTTCTGTCTTAGCGGCTGCAAACC
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gttt-taaccttgtataagc---ttcactctgaaatgttaattagaaa-gccctaacctgccacatcatgtttcta-atgaatttgagttcata--gGCTTTACTGGAAGCCATGGAGCAGCAATGTGTATCTGTGGCAAAGGCTGGCCTTGTGGCAAGTTTATCAGCCCGTACTTCTGTGCTAGCGGCTGCTAATC
upper sequence: GLYMA19G36230.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G163658_T01 (Zea mays), 3'ss of exon 8
-------gtttgttctctggtgtctggcaatcaatttcttg----ttactactttaatatattttaaacttttacctgaaaccttaacgtgaaattgtaataatacagGCTTTACTCGAGGCGATGGAGCAACAGTGTGTCTCTATTGCAAAGGCGGGATTAGTAGCAAGTTTATCATCCAGGACTTCTGTCTTAGCGGCTGCAAACC
|| || | | | || | | || || || | | | | | || | || || | | || ||||||||||| || || |||||||| || ||||| |||||||||||||| || | ||||||||||| ||| | | ||||| || || || |||||||| |
gtattacaattatttttcaccttatatgaagctttctcatgaagttttcaccagtgaggaagttcccatgcctatctatttgtgtttctaattgtttctggttctcagGCTTTACTTGAAGCCATGGAGCAGCAATGTGTTTCTATTGCAAAGGCTGGTCTTGTAGCAAGTTTGTCAGCTCGAACTTCAGTGTTGGCAGCTGCAAATC
upper sequence: GLYMA19G36230.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0040g03290.t01 (Vitis vinifera), 3'ss of exon 9
gtttgttctctggtgtctggcaatcaatttcttgttactactttaatatattttaaacttttacctgaaaccttaacgtgaaattgtaataatacagGCTTTACTCGAGGCGATGGAGCAACAGTGTGTCTCTATTGCAAAGGCGGGATTAGTAGCAAGTTTATCATCCAGGACTTCTGTCTTAGCGGCTGCAAACC
||||| || | || || || | | ||| || |||| | | || || | ||| | | || || ||| || | || || || ||||||||||||||||||||| |||||||||| ||| | || |||||||||||| | | |||||||||||||| || ||||| |
gtttggcct-----gactaatcattgatgtatcgtttgacctctaat---tgtcaagaccacac----atttctaattttgagtt----tacctcagTCTCTTCTAGAAGCCATGGAGCAACAGTGTGTCTCTGTTGCAAAGGCTGGACTTGTGGCAAGTTTATCAGCACGAACTTCTGTCTTAGCAGCGGCAAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatatattttaaacttttacctgaaaccttaacgtgaaattgtaataatacagGCTTTACTCGAGGCGATGGAGCAACAGTGTGTCTCTATTGCAAAGGCGGGATTAGTAGCAAGTTTATCATCCAGGACTTCTGTCTTAGCGGCTGCAAACC
ccttaac putative branch site (score: 3)
atattttaaactttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttctctggtgtctggcaatcaatttcttgttactactttaatatattttaaacttttacctgaaaccttaacgtgaaattgtaataatacagGCTTTACTCGAGGCGATGGAGCAACAGTGTGTCTCTATTGCAAAGGCGGGATTAGTAGCAAGTTTATCATCCAGGACTTCTGTCTTAGCGGCTGCAAACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG