Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaccatagtttgactagatgcgatttttacaatgttagtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
Basic information
species | Glycine max |
transcript | GLYMA16G00210.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G49810.1 (Arabidopsis thaliana), 3'ss of exon 5
gttagtaaccatagtttgactagatgcgatttttacaatgtta-gtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
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gtaagaattttttctttaa--agtcggaaagattatgctcctccacaatggccacttgacatgtgttttcacagGCTGCAGATACTGATATCTCAGCATTAGTTGAAATTGAGAGGAGCAGCCCTCATCGTTTTGAGTTCTTTATGGGACTTTCTGGAGACCAACCAATTTGTG
upper sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 6
---------gttagtaa-ccatagtttgactagatgcgatttttacaatgttagtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
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gttattcaggcgagtaaacctttcttttagtgaagattatgtctccaccaaaaatgctttcctcatgaaatt--ttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
upper sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ08178 (Selaginella moellendorffii), 3'ss of exon 5
gttagtaaccatagtttgactag-atgcgatttttacaatgttagtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
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-------------gtcaaacaggcaaGCAGCCGATATTCCCGCCTTTCTGATTCACTGACTT-TATTACCTTAGGCAGCCGATACAGACATTTTAGCGCTAGTTGAGATAGAGAAGAACAGCCGCCATCGCTTTGAATTTTTTATGGGGCTGTTGAGCGAAGAGCCGATCTGTG
upper sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ12263 (Selaginella moellendorffii), 3'ss of exon 5
gttagtaaccatagtttgactag-atgcgatttttacaatgttagtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
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-------------gtcaaacaggcaaGCAGCCGATATTCCCGCCTTTCTGATTCACTGACTT-TATTACCTTAGGCAGCCGATACAGACATTTTAGCGCTAGTTCAGATAGAGAAGAACAGCCGCCATCGCTTTGAGTTTTTTATGGGGCTGTTGAGCGAAGAGCCGATCTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actagatgcgatttttacaatgttagtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
atcttac putative branch site (score: 3)
atttttacaatgttag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaaccatagtttgactagatgcgatttttacaatgttagtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA