Sequence
atgc intronic sequence ATGC exonic sequencegtatgactgcttcccatcagctaatatgttttcctgtgtcatcattttctgtctaactgttccacagGCCCTACCAGATGATTTGAAGACAAAGCTCAGCCTAGATGAGGATTTGGTGTCAAGCCCTAAAGAAGCACTATCTAGAGCCTCTGCCGACAGAGTTGCCA
Basic information
species | Glycine max |
transcript | GLYMA02G14110.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 8
----------------------------------gtatgactgcttcccatcagctaatatgttttcctgtgtcatcattttctgtctaactgttccacagGCCCTACCAGATGATTTGAAGACAAAGCTCAGCCTAGATGAGGATTTGGTGTCAAGCCCTAAAGAAGCACTATCTAGAGCCTCTGCCGACAGAGTTGCCA
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gtatgtatattttgttagttatgttgcttacactgtatatttgcatttgttc---tagttgttttgtttatttcattggttg-tatctgactgctatgcagGCGTTACCAGAAGATTTGAAGACAAAGCTCAGCATCGACGATGAGCTGGTCTCAAGTCCAAAGGAAGCCTTTTCCCGTGTTTCGGCTGATCGGAGAAACA
upper sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G26190.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgactgcttcccatcagctaatatgttttcctgtgtcatcatttt----------ctgtctaactgttcca---cagGCCCTACCAGATGATTTGAAGACAAAGCTCAGCCTAGATGAGGATTTGGTGTC------AAGCCCTAAAGAAGCACTATCTAGAGCCTCTGCCGACAGAGTTGCCA
||||| | | | || | | | ||||| | || | |||||| ||| |||| | ||| |||||||||||||||||| | |||| ||||| ||| ||||||||||||||||||| ||||||||| |||||||| | |||| ||||| || ||||
gtatg--ttttgctgttcgggttttgagttttgttttgactacattttatctggggtcctgactaaaaatcccatcacagGCCCTACCAGATGATCTAAAGAACAAGCTTAGCTTAGATGAGGATTTGGTGTCTAGTTCAAGCCCTAAGGAAGCACTCTTACGAGCGTCTGCAGATAGAG------
upper sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 7
gtatgactgcttcccatcagc-taatatgttttcctgtgtcatcattttctgtctaactgttccacagGCCCTACCAGATGATTTGAAGACAAAGCTCAGCCTAGATGAGGATTTGGTGTCAAGCCCTAAAGAAGCACTATCTAGAGCCTCTGCCGACAGAGTTGCCA
||| | | || ||| | | || || |||| || | | ||| | |||||||||| | ||||||||||||||||||||||| || ||||||||||| |||| || ||||| ||||| || || ||| || |||||| ||||| ||||| |
gtagggcagcctccaaaatttatgatgccttatcctacgttggtaatcctgatctgatcattccacagGCATTGCCAGATGATTTGAAGACAAAGCTTAGTATAGATGAGGATATGGTTTCCAGCCCCAAAGAGGCTCTTTCTCGATTCTCTGCAGACAGTGTTGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccatcagctaatatgttttcctgtgtcatcattttctgtctaactgttccacagGCCCTACCAGATGATTTGAAGACAAAGCTCAGCCTAGATGAGGATTTGGTGTCAAGCCCTAAAGAAGCACTATCTAGAGCCTCTGCCGACAGAGTTGCCA
gtctaac putative branch site (score: 2)
ctgttcc CT-rich tract
taatatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgactgcttcccatcagctaatatgttttcctgtgtcatcattttctgtctaactgttccacagGCCCTACCAGATGATTTGAAGACAAAGCTCAGCCTAGATGAGGATTTGGTGTCAAGCCCTAAAGAAGCACTATCTAGAGCCTCTGCCGACAGAGTTGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC