Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcctaaaatatgttgttgtttcctagtaacttctattatagttgtgtctatattgggaagcttaattaactccaagtactaactgggaatcctgaatttgtttttttttttggtataattaaagTATGTGATGGACGGATATCAATGGAGGAAATATGGTCAGAAGGTCACTAGGGATAACCCTTCTCCTAGGGCTTACTTCAGGTGCTCCTCTGCCCCAAGTT
Basic information
species | Glycine max |
transcript | GLYMA14G11960.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G11960.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g08440.4 (Oryza sativa), 3'ss of exon 2
--gtaagttcctaaaatatgttgttgtttcctagtaacttctattatagttgtgtctatattgggaagcttaattaactccaagtactaactgggaatcctgaatttgtttttttttttggtataattaaagTATGTGATG---GACGGATATCAATGGAGGAAATATGGTCAGAAGGTCACTAGGGATAACCCTTCTCCTAGGGCTTACTTCAGGTGCTCCTCTGCCCCAAGTT
| | || || || | || | | || | | || ||| ||| || || | || || | | ||| | || | | |||| | | || || ||| | | | ||| || || || || ||||||||||| ||||||||||||||||| | ||| ||||| | || || || |||||||| ||||| | ||| || |
gtacgaatccccaaccccaattaacat--ccgatcatctcatttcat----gtgcctaactt---aacttctttttgttctgaattctagccttgattaattaattaatcctgttcttgcaatgaatccatgcagGTGGTGAAAGATGGGTACCAATGGAGGAAGTATGGTCAGAAGGTCACCAAGGACAACCCCTGCCCAAGAGCCTACTTCAGATGCTCATTTGCTCCCGCCT
upper sequence: GLYMA14G11960.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0008g05760.t01 (Vitis vinifera), 3'ss of exon 3
gtaagttcctaaa-atatgttgttgtttcctagtaacttctattatagttgtgtctatattgggaagcttaattaactccaagtactaactgggaatcctgaatttgtttttttttttggtataattaaagTATGTGATGGACGGATATCAATGGAGGAAATATGGTCAGAAGGTCACTAGGGATAACCCTTCTCCTAGGGCTTACTTCAGGTGCTCCTCTGCCCCAAGTT
|||||||| | | | | ||| | || | | ||| | | | || | || || | |||||||| ||| || |||||| || | ||| | || || | ||| ||||||||| |||||||| || ||||| ||||||||||| || |||||||||||||| || || ||||||| |||||||| |||||||| |
gtaagttctggcctagacatagaaatttatgaacaattg--gtggaagtactccttctgccatgatttctgatcaatt---agtactaa----gaac---gatcctgttttcttcctgggttt--ttgcagCTTCTGAAGGACGGATACCAATGGAGAAAGTATGGGCAGAAGGTCACCAGAGATAACCCTTCTCCCAGAGCCTACTTCAAGTGCTCCTTTGCCCCAACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctccaagtactaactgggaatcctgaatttgtttttttttttggtataattaaagTATGTGATGGACGGATATCAATGGAGGAAATATGGTCAGAAGGTCACTAGGGATAACCCTTCTCCTAGGGCTTACTTCAGGTGCTCCTCTGCCCCAAGTT
tactaac putative branch site (score: 0)
tgaatttgtttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcctaaaatatgttgttgtttcctagtaacttctattatagttgtgtctatattgggaagcttaattaactccaagtactaactgggaatcctgaatttgtttttttttttggtataattaaagTATGTGATGGACGGATATCAATGGAGGAAATATGGTCAGAAGGTCACTAGGGATAACCCTTCTCCTAGGGCTTACTTCAGGTGCTCCTCTGCCCCAAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC