Sequence
atgc intronic sequence ATGC exonic sequencegttatgatttaactatttttcttgctactagggatactctatttactccagttataatattccaatgttgagttaatgacacattttaatttcagGTCCTACTTCATTTGCGCCAATAATTGAAATGGCCATGAGCATTGTTGAACAGAGTGGAGGCCAGTACCATGTGTTGGTGATAATCGCAGATGGCCAG
Basic information
species | Glycine max |
transcript | GLYMA19G22800.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G22800.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g19030.1 (Oryza sativa), 3'ss of exon 5
gttatgat-ttaactatttttcttgctactagggatactctatttactccagttataatattccaatgttgagttaatgacacattttaatttcagGTCCTACTTCATTTGCGCCAATAATTGAAATGGCCATGAGCATTGTTGAACAGAGTGGAGGCCAGTACCATGTGTTGGTGATAATCGCAGATGGCCAG
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gtaagaacattcacttgctttgttatcttttggaatgtacaa---acaccatc---aatgtataaatgtgtaatttat--tgtgtttc---tttagGTCCTACATCATTCTCTCCAATAATTGAAATGGCCACAACCATTGTTGAACAAAGTGGTGGCCAGTACCATGTATTAGTAATAATCGCTGATGGACAG
upper sequence: GLYMA19G22800.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G073049_T01 (Zea mays), 3'ss of exon 5
--------------------------------------------------------gttatgattt---aactatttttcttgctactagggatactctatttactccagttataatattccaatgttgagttaatgacaca-----ttttaatttca-----gGTCCTACTTCATTTGCGCCAATAATTGAAATGGCCATGAGCATTGTTGAACAGAGTGGAGGCCAGTACCATGTGTTGGTGATAATCGCAGATGGCCAG
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gtatgatttttttttaatttggaaatatgtagtgaccagttaaattcatggatataattggaatctgggaacagttgtgtgtagtagcataggaccctcaccacctttatttgtagtaa-ctaatacaaactctccaacatgtaattttttggcattaatcaagGTCCTACGTCATTCGCCCCAATAATTGACATGGCCACAACCATTGTGGAGCAAAGTGGTGGCCAATACCATGTTTTAGTAATTATTGCTGACGGGCAG
upper sequence: GLYMA19G22800.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0066g00290.t01 (Vitis vinifera), 3'ss of exon 4
gttatgatttaact-atttttcttgcta--------ctagggatactctatttac-tccagttataatattccaatgt-tgagttaatgacacattttaatttcagGTCCTACTTCATTTGCGCCAATAATTGAAATGGCCATGAGCATTGTTGAACAGAGTGGAGGCCAGTACCATGTGTTGGTGATAATCGCAGATGGCCAG
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gtttgaactctactcattttctttgttgggttcttgttctgaagttcttattggtgttcagctggttttcttaagagtgtatgctgatatgctatatttgctgcagGACCGACATCATTTGCCCCCATCATTGAAATGGCCATGACTATTGTCAATCACAGTGGTGGCCAGTACCATGTTCTAGTAATAATTGCTGATGGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttactccagttataatattccaatgttgagttaatgacacattttaatttcagGTCCTACTTCATTTGCGCCAATAATTGAAATGGCCATGAGCATTGTTGAACAGAGTGGAGGCCAGTACCATGTGTTGGTGATAATCGCAGATGGCCAG
ttttaat putative branch site (score: 3)
ttataatattccaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatgatttaactatttttcttgctactagggatactctatttactccagttataatattccaatgttgagttaatgacacattttaatttcagGTCCTACTTCATTTGCGCCAATAATTGAAATGGCCATGAGCATTGTTGAACAGAGTGGAGGCCAGTACCATGTGTTGGTGATAATCGCAGATGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG